When Capt. America escapes from the lab, General Fury is in a stealth suit (mildly reminiscent of the Hulkbuster suits). When Fury walks up to Cap outside, he is now wearing his usual military uniform. When did he find time to change clothes?
When the Chitauri ships attack S.H.E.I.L.D., General Fury gives orders to "move to DEFCON 5". DEFCON 5 is "Normal peacetime readiness".
The aircraft Captain America and the 101st Airborne troops use at the beginning of the film are B-24 Liberator bombers and were not used for transport in 1945.
The DVD trivia pop-ups are riddled with grammar, spelling and punctuation errors. Some are in a different typeface than the rest.
Thor pronounces "Jotunheim" incorrectly.
Thor pronounces "Mjolnir" incorrectly.