The club angered their loyal following by offering each of their estimated 10,000 season ticket holders as many as four tickets each to fill the clubs 12,650 allocation.
Fulham responded to the criticism by requesting more tickets from Uefa, blaming an “unprecedented demand”.
But fans such as Paul Clayton, a season ticket holder at Craven Cottage for 12 years, remain up in arms. He said: “I followed Fulham home and away throughout this competition, yet I couldn’t get a ticket. By 9am they had all gone because people were snapping up four per season ticket. In the end, my brother got a ticket from an American website in a ‘neutral zone’, costing £225.
“It’s a joke, they’ve just tried to sell the tickets as fast as they could without any thought. It’s not difficult, if you’ve got just over 10,000 season ticket holders and 12,650 tickets to sell, why not offer two per season ticket holder?”
A club spokesman replied: “We are lobbying for more tickets, fans should register with us.”
Fulham have also failed in an attempt to move Sunday’s final match at Arsenal forward 24 hours.