On the pitch, the Hammers signed off in style as Winston Reid's header completed a come-from-behind 3-2 win over Manchester United, but kick-off had been delayed for 45 minutes after United's coach came under attack on its approach to the stadium
Bottles were also thrown at United goalkeeper David de Gea during the match, while another fan invaded the pitch to confront the Spaniard
In a statement issued in the early hours of Wednesday morning, West Ham said: "It was an extraordinary night full of extraordinary moments in front of extraordinary fans
99 percent of whom behaved impeccably and were a credit to the club
"We have already had thousands of Tweets and emails from fans to say how proud they were to be a part of such a special evening in West Ham's history.
"However, we are aware that there were some supporters outside the Boleyn Ground who didn't act in an appropriate way when the Manchester United team bus was damaged.
"That was not acceptable and we will work with the police to identify those responsible and ban them for life."
The statement came after West Ham co-chairman David Sullivan - apparently unaware of the scale of the trouble outside the ground - initially blamed United for the delay to kick-off, and said match officials and police had been 'kind' to the visitors.
''It is depressing really,'' he told BBC Radio Five Live.
''It will be a late night for our fans and some of them won't be able to stay
I don't understand why United couldn't get here at 4pm
They could have got here early
They knew it would be busy
It's crazy.
''There was congestion in the street and they couldn't get the coach in
There were people around the coach, but there was no attack on the coach.
''If you check the coach there won't be any damage to it
If we arrived late at Old Trafford they wouldn't put the kick-off back.''
The Metropolitan Police confirmed that one officer and a member of the public sustained minor injuries in the trouble.
A statement from the force said: ''We are aware that a number of items were thrown towards Manchester United's coach this evening, Tuesday, 10 May.
''One police officer and a member of the public sustained minor injuries.
''There have been no arrests
An appropriate policing plan is in place."
United's departure was also delayed as a result of the trouble, as they were forced to wait until after midnight for a replacement coach to arrive.
A number of West Ham players were also held up as their cars were blocked in by the stricken coach
The FA released a statement saying it would launch its own investigation into the unrest - including the incidents during the match
The statement said: "The FA strongly condemns the unsavoury incidents this evening involving both the Manchester United team coach outside West Ham United's Boleyn Ground and objects thrown from a section of the home support during the game.
"We will work closely with both clubs and the Metropolitan Police to fully investigate these matters."
West Ham boss Slaven Bilic intimated after the game that it was a lack of policing which had led to the incident
"That is not a question for me," he replied when asked about the pre-match trouble.
"It was strange for me, I don't want to teach lessons to the people in Canary Wharf
In Canary Wharf if you poke your nose you have two policemen surround you saying you can't do that.
"Here you have a football game, 50,000 people on the street, that is kind of strange to me."
The defeat means United now face an uphill battle to reach to top-four and qualify for the Champions League
Manager Louis van Gaal said he could not use the pre-match disruption as an excuse - but conceded it could have impacted on his younger players.
''First of all you cannot prove that (it had an effect),'' he said.
''We live in this world, we know that, I know it is not the first time it happens
Okay, I have a long experience in football and there are players who don't have the experience
''It will have an influence but I don't think we have to look for excuses because we chased the match in the second half and 20 minutes before full-time we are ahead so I don't think you have to look for that excuse."
The Metropolitan Police said on Wednesday that four police officers had been injured during the trouble
No arrests have been made over criminal damage to the coach.
Three men were arrested during the game, including a 20 year old on suspicion of affray and a 47 year old and 18 year old for pitch incursion
Officers from the Met's Central Football Unit are scouring CCTV footage and have appealed for witnesses
Source : PA
Source: PA