When Casey makes a surprise visit to Chuck's apartment, he enters saying that he just moved in upstairs, when he actually moved in next door.
When Chuck and Ellie are talking before Bryce's funeral, Chuck's tie changes height below his collar several times between shots.
As Sarah is escaping the premises in the pilot, Ninja suit on, she is leaving the address at 1832-1850, as she leaves Ellie's after dinner she is at 1835-1837.
When Chuck is being tested by Dr Zarnow, he says the last image seen is a turtle. It's actually a tortoise.
When General Beckman tells Casey "Don't let Chuck out of your sight," the subtitles spell "sight" as "site."
Chuck supposedly knows every government secret ever yet he can't figure out whether Casey or Sarah can be trusted.