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Extracts from the National Archives commonly make reference the use of flags in the UK. Below are selections found by perusing the Archives from the 19th Century.
The Acts of Union passed by the Parliaments of Great Britain and Ireland, in July and August 1800 respectively, made no reference to the flags of the United Kingdom except to say that they "shall be such as His Majesty shall be pleased to appoint." This was achieved by two Royal Proclamations of 1 January 1801. The First, among other things, described the Royal Standard and Union Flag, while the Second detailed "the Ensigns, Flags, Jacks, and Pendants worn by Our Ships".
"We have, therefore, thought fit, by and with the Advice of Our Privy Council, to order and appoint the Ensign described on the Side or Margin hereof to be worn on board all Ships or Vessels belonging to any of Our Subjects whatsoever, and to issue this Our Royal Proclamation to notify the same to all Our Loving Subjects, hereby strictly charging and commanding the Masters of all Merchant Ships and Vessels belonging to any of our Subjects, whether employed in Our Service or otherwise, and all other Persons whom it may concern, to wear the said Ensign an board their Ships or Vessels: ......... which shall be worn instead of the Ensign before this Time usually worn in Merchant Ships;"The 'ensign described in the margin', as drawn on a poster of the proclamation, [National Archives PRO 61/73] is small, black and white, and not very clear. The proclamation ends with the procedure to be followed if ships failed to wear the Red Ensign, or wore prohibited flags, but no punishment or penalty for infringement of the rules is specified.
In 1819 the master of a ship in home waters who had persisted in flying a 
 blue ensign and pendant although repeatedly fired at, was prosecuted by the 
 Admiralty, but upon his appeal the prosecution was dropped with the hope that 
 'it will be understood that any future violation of the law will be punished 
 strictly.' Two other ships were, in the following year, prosecuted for flying 
 pendants, and in 1821 the attention of the Commanders-in-Chief was called to 
 the existing regulations 'relative to Colours to be worn by private ships which 
 it has been apprehended have not been generally attended to.' " [W.G.Perrin, 
 'British Flags' p.133]
It was difficult to enforce the terms of the 
 proclamation due to the lack of any specified penalty. An attempt to rectify 
 this was made in 1822. Section 24 of a 1784 Act for the Prevention of 
 Smuggling, 24 Geo.III, c.47, (47th chapter, or act, passed in the 24th year of 
 the reign of King George III), stated that any person having charge of a 
 vessel, not in the service of His Majesty's Navy, Revenue, Customs or Excise, 
 that hoisted the pendant or ensign of the Revenue, Customs or Excise should 
 forfeit the sum of five hundred pounds. The Act was amended by 3 Geo.IV, c.110. 
 A preamble referred to the Act of 1784 and the Proclamation of 1801, and then 
 stated "And whereas it is expedient that all Doubts that may have been 
 entertained as to the Law on this Subject should be removed, and that Provision 
 should be made for carrying the said Proclamation into Effect; be it therefore 
 enacted and declared, that from and after the passing of this Act, it shall not 
 be lawful for any of His Majesty's Subjects whomsoever to hoist, carry, or 
 wear, in or on board any Ship, Vessel or Fishing Boat, or any other Vessel or 
 Boat whatever, whether Merchant or otherwise, belonging to any of His Majesty's 
 Subjects, His Majesty's Jack, commonly called the Union Jack, or any Pendant, 
 or any such Colours as are usually worn by His Majesty's Ships, or any Flag, 
 Jack, Pendant or Colours whatever, made in imitation of or resembling those of 
 His Majesty, or any Kind of Pendant whatsoever, or any Ensign or Colours, other 
 than those prescribed by the said Proclamation." After detailing those who 
 could enforce the Act, and where proceedings should take place, the penalty for 
 offending was set at "Five Hundred Pounds, to be recovered with Cost of Suit" 
 This was a very severe penalty. In 1820 the total cost of building HMS Beagle, 
 a ten gun brig, had been only seven thousand eight hundred pounds.
Royal 
 Assent was given on 5 August 1822, and the provisions of the Act promulgated by 
 an Admiralty Warrant of 16 September 1822. Other Acts for the Prevention of 
 Smuggling repeated the section on colours in 1825 (6 Geo IV c.108), 1833 (3 & 4 
 Will IV c.53) and 1845 (8 & 9 Vic c.87).
1824. The Regulations and 
 Instructions relating to His Majesty's Service at Sea were revised and approved 
 by the King in Council, 24 June. The section on non-naval colours read: "All 
 Ships and Vessels belonging to His Majesty's Subjects shall wear a Red Ensign 
 with the Union in the Upper Canton next the Staff." It ended with the usual 
 injunction that ships should not hoist flags appointed to be worn by ships of 
 the Royal Navy, nor any flags resembling them. Naval officers could seize any 
 such flags and report the master or owner, so that proceedings might be taken 
 against them. 
[BT 103/308]
David Prothero, 26 November 2010
In 1846 the Governor of Gibraltar forwarded a report from the Admiralty Agent 
of the British Steam Packet 'Royal Tar' to William Gladstone, Colonial 
Secretary. The Agent had reported that while at anchor at Cadiz, a small trading 
brig belonging to Harding & Co. of Dublin had hoisted a 
green Ensign with a Harp and Crown in the fly and a Union Jack in the corner 
of it. He added that as there was no recognised flag of that colour and pattern 
belonging to Great Britain, he had expressed his intention of hauling it down as 
had been done on two other occasions in Ireland on board of the same vessel. The 
captain of the brig was reported to have said that he hoisted the flag in 
compliment to H.M. Pendant, to which the Agent replied that he could not offer 
it a greater insult than hoisting what he deemed a Rebel Flag.
In the 
covering letter the Governor wrote that in his opinion such a Flag ought not to 
be allowed to fly in any port where there was a British Consul and that if met 
with on the High Seas might be dealt with as the emblems of a piratical vessel. 
The British Consul at Cadiz certainly would be authorised to hold from it, all Consular aid and make a 
protest to the Spanish Authorities in the name of the Queen's Government against 
its display.
The report was passed on to the Admiralty via the Home 
Office. The Admiralty Secretary replied that, "My Lords have no observation to 
make on the subject." [HO 45/1557]
David Prothero, 27 November 2010
The Merchant Shipping Act of 1854 (17 & 18 Vic c.120) made the Board of 
 Trade responsible for matters relating to merchant ships and seamen. Royal 
 Assent was given on 10 August 1854.
In Section 103. "If any person uses 
 the British flag, and assumes the British national character on board any ship 
 owned, in whole or in part, by any persons not entitled by law to own British 
 ships, for the purpose of making such ship appear to be a British ship, such 
 ship shall be forfeited to Her Majesty, unless such assumption has been made 
 for the purpose of escaping capture by an enemy or by a foreign ship of war in 
 exercise of some belligerent right."
In Section 105. "If any colours 
 usually worn by Her Majesty's Ships, or any colours resembling these of Her 
 Majesty, or any distinctive National Colours, except the Red Ensign usually 
 worn by Merchant Ships, or except the Union Jack with a White Border, or if the 
 Pendant usually carried by Her Majesty's Ships or any Pendant in anywise 
 resembling such Pendant, are or is hoisted on board any Ship or Boat belonging 
 to any Subject of Her Majesty without Warrant for so doing from Her Majesty or 
 from the Admiralty, the Master of such Ship or Boat, or the Owner thereof, if 
 on board the same, and every other Person hoisting or joining or assisting in 
 hoisting the same, shall for every such Offence incur a penalty not exceeding 
 Five Hundred Pounds, and it shall be lawful for any Officer on Full Pay in the 
 Military or Naval Service of Her Majesty, or any British Officer in the 
 Customs, or any British Consular Officer, to board any such Ship or Boat, and 
 to take away any such Jack, Colours, or Pendant; and such Jack, Colours, or 
 Pendant shall be forfeited to Her Majesty." [ADM 116/3566]
The Admiralty 
 stated that this was intended to prevent the use by British vessels of fancy 
 flags in lieu of national colours. [MT 9/358]
David Prothero, 27 
 November 2010
In 1859 a launch 'English Packet' owned by Messrs Tobin of Liverpool, was 
seized by a boat from HMS 'Vesuvius' on the Congo River off Cabinda, for 
carrying British colours when not registered as British. She had been built on 
the coast and collected produce from small towns to convey to the Depot. The 
seizure was declared illegal. The launch was a British ship and entitled to the 
privileges of a British ship, but not entitled to protection. She ought to have 
been registered, but there was no penalty for not being registered, and not 
liable to seizure for carrying British colours. 
[MT 9/9 file 13236]
David Prothero, 27 
 November 2010
The 1862 edition of Pritchard's Admiralty Digest suggested that there was an 
omission in the law on illegal colours. Before 1854 the law was the 1801 
Proclamation and 8 & 9 Vic c.87, s.10 giving penalties and procedures. This was 
repealed by 17 & 18 Vic c.120, s.4, and the only provision remaining was section 
105 of Merchant Shipping Act 1854. This did not say how the penalties were to be 
enforced.
The Board of Trade presumed that penal action could be taken in 
the Court of Queen's Bench (common law) upon information filed by the Attorney 
General. The Admiralty replied that when convenient they would like a clause 
inserted giving an easier way of enforcing the law. The Board of Trade suggested 
making the offence a misdemeanor under Section 518 giving power to proceed 
summarily for a smaller but sufficient penalty. [MT 9/47 file 8961]
The 
Admiralty told the Board of Trade that Rear-Admiral Frederick commanding HM 
Ships Cork had reported that masters on several occasions refused to show 
colours to commanders of gun vessels off the coast of Ireland, asserting that 
there was no law that obliged them to do so.
The Board of Trade asked for 
a Legal Opinion.
"I am of opinion that it is 
lawful for the commanding officer of HM ships of war to compel by force all 
merchant ships on the high seas purporting to be British, to stop and submit to 
be visited, and that mail packets form no exception to this rule, ........ With 
regard to vessels neglecting to show any colours on meeting with HM ships on the 
high seas, as in the case mentioned in the letters of HM officers, I should 
advise that a Warrant of Arrest should be taken out from the Admiralty Court 
against the commander of any such vessel, for contempt of the Royal Proclamation 
of January 1st 1801 in neglecting to show the Ensign therein prescribed to be 
carried by a British merchant ship. This Proclamation may be referred to in 
Ch.Robinson's reports appendix number 11 p.13 and I consider it to be in force 
at the present time having been recognised so recently as 1845 in 8 & 9 Vic 
c.87, s.10. Travers Twiss, Doctors' Commons (a society of civil lawyers). June 
22nd 1864 [MT 10/31]
David Prothero, 27 
 November 2010
Order in Council, July 9th 1864 "We therefore most humbly submit that Your 
Majesty may be pleased by your Order In Council to prescribe the discontinuance 
of the division of Flag Officers into the Red, White, and Blue Squadrons and to 
order and direct that the White Ensign, with its broad and narrow pendants, be 
henceforward established and recognised as the colours of the Royal Naval 
Service, reserving the use of the Red and Blue colours for such special 
occasions as may appear to us or to officers in command of Fleets and Squadrons 
to require their adoption: The Red Ensign and Union Jack, with a White border, 
continuing as at present the national colours for all British Ships, with such 
conditions in favour of Yachts and other vessels as we may from time to time 
authorise to bear distinguishing flags." 9 July 1864, effective 18 Oct 1864. 
[ADM 116/3566]
David Prothero, 27 
 November 2010
11th September 1866. Admiralty to Board of Trade. Enclosing report from Rear-Admiral Charles Frederick stating that many Masters of British vessels refused to show their colours when requested to do so by HM Cruizers. Asked Board of Trade to issue notices cautioning Masters. Board of Trade Minute.
14th September 1866. Mr Fane's Opinion. 
"The Admiralty say that Masters 
of British merchant vessels have on several occasions refused to show any 
colours to the commanders of gun vessels on the coast of Ireland, and have 
declared that there was no law nor authority directing them to hoist their 
colours. They send an opinion of the Admiralty Advocate, in which he recommends 
that in just such a case a proceeding be taken in the Admiralty Court against 
the Master for contempt of a Royal Proclamation of 1st January 1801. The 
Admiralty now ask the Board of Trade to issue instructions to make Masters of 
British vessels acquainted with the duty which is incumbent on them to show 
their colours, when required, to HM Cruizers. A Royal Proclamation cannot by 
itself create an offence. What punishment the Admiralty court could inflict for 
not showing the ensign upon a master whose name has been returned is perhaps not 
easier to ascertain than the consequences to a Member of Parliament of being 
barred of the House by the Speaker, for being out of order. A Notice to be 
published by the Board of Trade in which the Proclamation is merely referred to, 
would be of little avail. But if the Board of Trade would make it known that 
there are serious consequences for those who disregard it, the Notice might have 
some effect. I think we should state this view to the Admiralty, and suggest 
that [?] [?] [?] should in the first instance take a proceeding against an 
offender, as recommended by their Advocate, and the result of such proceeding 
might then, if it is found expedient, be published by the Board of Trade."
5 October, The Vice President.
"I agree with Mr. Fane unless reasonable 
suspicion were excited by a vessel neglecting to show colours I imagine a 
Queen's officer could not interfere with her. The law rather aims at preventing 
unqualified persons from using the colours. Still the practice is to do so and 
it is expedient for the [police?] of the seas, and a clause to the effect might 
be introduced in any amendment of existing legislation.
10 October. Mr.[Henry C.?] Rothery.
"I entirely concur in the views 
expressed by Mr. Fane in the very able Minute which he has written. A Royal 
Proclamation may declare what the law is, but it has not power, independently of 
Statute, of making the law, or of attaching any punishment to the non observance 
of the Proclamation. The Merchant Shipping Act 1854 provides for the case of a 
British merchant vessel assuming illegal colours, but is quite silent as to the 
power of naval officers to compel merchant vessels to hoist their ensigns. I 
think that the answer proposed [?] [?] to be returned to the Admiralty is the 
proper one: if the Admiralty thinks that it has the power to compel merchant 
vessels to show their colours, let them try to do so, and the Board of Trade 
will then know how to act. All I can say is that, if applied to, I shall 
certainly not allow a Warrant to issue from any such cause; and if the Admiralty 
want to try the point, they must do so by a motion, [requiring?] the Master to 
show cause why he did not hoist his colours. I know of no Act, which would 
compel him to do so, and the proper course, it seems to me, would be to bring in 
a short Act, and then the policy of the [measure?] may come fairly before the 
legislature. [MT 10/24]
David Prothero, 29 November 2010
In January 1866 the Admiralty asked the Board of Trade to amend the Merchant Shipping Act 1854 by reducing the penalty of five hundred pounds for illegal colours as this high penalty deterred officers from taking action, and to issue instructions requiring merchant ships to show colours to HM ships after refusals to do so.
20 May 1867. Merchant Shipping (Amendment) Act. Section 105 of the Principal 
Act repealed to insert a reduction in penalty, for displaying any colours 
resembling those of HM ships or worn by foreign ships of war or national 
colours, to not exceeding fifty pounds. [MT 9/36]
David Prothero, 30 November 2010
18 June 1868. Captain Robert Jenkins of HMS 'Royal George' at Kingstown reported S.S. 'Moravian' owned by J & A Allen arrived flying French flag under a red pennant at the main. Company claimed that it was their private ensign before the tricolour became the French national flag. It was a House Flag, not a national flag, and even if a national flag, all ships flew national flags at the main to show from whence they came.
11 Aug 1868. S.S. 'Neptune' of Liverpool, owned by Messrs. J & P. Hutchison, of Clyde St., Glasgow flying French flag.
27 Sep 1868. Dublin. 'William Connel' flying French flag with thistle in the 
white panel.
Legal Opinion that Section 105 of the Merchant Shipping Act 
1854 probably prohibited only English, not foreign, colours.
As the 
result of a dispute following the seizure of the colours of S.S.'Tiverton' by 
the commander of HMS 'Euphrates', the Admiralty issued Circular No.6, 4 February 
1869.
"Illegal colours were summarily hauled down without previous notice. In 
future communication in writing to be sent to master calling his attention to 
105th section of Merchant Shipping Act 1854. No further steps unless, after the 
lapse of a reasonable time after such communication, the illegal colours 
continued to be worn." [MT 9/43]
9 August 1869. The Admiralty wanted the 
Board of Trade to change section 105 of Merchant Shipping Act 1854. It did not 
prohibit British ships from flying foreign flags, only from flying flags 
resembling Her Majesty's flags. 
The Board of Trade wrote that foreign 
flags were usually hoisted only at the main masthead, where national colours 
were not normally hoisted, to indicate the country from which the ship was 
coming.  Admiralty replied that the practice ought to be stopped. [MT 9/74]
David Prothero, 30 November 2010
30 June 1871. 'Princess Royal', owned by Messrs Langlands & Son, Glasgow,
was chartered to Messrs Vallery frere et fils of Marseilles, to run between
there and Algiers for six months, or longer in their option. The vessel had a 
French captain and crew, but an English certificated master and an engineer 
were on board to look after the property. The ship remained registered as a 
British ship but the French government insisted that she should occasionally 
hoist the French flag, and had given her a special licence to do so. The 
British consul would not permit the vessel, while British property, to carry 
French colours. The company understood that it was not unprecedented for an 
English steamer to fly a foreign flag while engaged solely in foreign trade.
21 July 1871. British Consul, Marseilles to Foreign Office. 
In accordance 
with Foreign Office dispatch No.9 of 19 July, 'Princess Royal' of Messrs 
Langlands & Son, Glasgow, sailed wearing French colours.
6 September 
1871. London & Edinburgh Shipping Company, Leith, to Admiralty.
"Steamer 'Malvina' 
(register no.55121) chartered to a French company under contract to convey 
mails from Marseilles to Algiers and other places in the Mediterranean. Must 
be done under French flag. Request permission as understood to have been 
already granted for another vessel." The Admiralty replied that they had no 
objection, but had no power to issue a warrant for a British ship to fly a 
foreign flag. Commander-in-Chief, Mediterranean Fleet informed. Customs were 
concerned that there might be difficulties over the ship's papers required by 
British regulations. The Board of Trade described it as pursuing a "very 
illegal and dangerous course", but Admiralty and Foreign Office directed 
Consular Officers not to interfere if ships flew French flag, and to provide 
normal consular support.
2 October 1871. Admiralty to Board of Trade. Re. 
'Princess Royal'.
"Have no power to authorise wearing of any other national 
colour than those sanctioned and required by Act of Parliament. Does flying 
the French flag debar the vessel 
from claiming the protection and assistance of a British consul? Actual 
legality in considerable doubt. Board of Trade inclined to think that 
Merchant Shipping Act forbids use, except under warrant from Admiralty, of 
any national colour other than the Red Ensign. Wearing French colours as 
national colours is contrary to the Act." [MT 9/59]
David Prothero, 1 December 2010