I personally still think that some FP need to be removed to increase line flow. Peter Pan and Toy Story Mania are my two big examples.
Absolutely not. Especially at Peter Pan's Flight. Peter Pan's Flight is an absolutely perfect Fastpass attraction. Peter Pan's Flight works as a Fastpass attraction because there are 6 other legit Fastpass attractions in that park, with at least Space Mountain regularly having a comparable demand. The problem that faces Toy Story Mania isn't the presence of Fastpass, it's that it's far and away the highest demand Fastpass attraction in that park.
Fastpass works, and really only needs a few tweeks.
Magic Kingdom: It needs to be added to Tomorrowland Speedway and officially removed from PhilharMagic and Stitch's Great Escape. It can also be a seasonal addition to Haunted Mansion, It's A Small World and Pirates of the Caribbean, but that's less of an issue
Epcot: It's probably not needed at Living with the Land, but they run that pretty much seasonally anyway. I would like to see it added to Epcot Character Spot, but it seems that throughput there isn't as effecient as it is in Town Square Theater
Hollywood Studios: I'd like to see Toy Story Mania Fastpasses have the "time when you can get a new Fastpass" bumped out to 3 hours. This will prevent more people from getting two Fastpasses for that attraction. It could be added to Great Movie Ride, but I think a refurb is necessary before the demand is there. The biggest problem is that the park needs another low-average capacity family attraction (1000-1400 guests per hour) that has Fastpass and no height requirement. This will help the demand for the Toy Story Fastpasses. They can also officially remove the machines at Indiana Jones, Lights Motors Action and Little Mermaid (which are currently seasonal). I would also like to see a "Show Pass" for Fantasmic, similar to World of Color
Animal Kingdom: They made the change I've been asking for, and that's running Fastpass at Primeval Whirl. I don't believe it's even seasonal, I believe they have it running every day. It looks like the It's Tough to be a Bug machines are either completely removed, or they have removed all but 2. I like the idea of show passes in this park, but on most days it's unnecessary. They ran Fastpass for Nemo and Lion King during Christmas-New Years week, but not Flights of Wonder - they did however add a 4:45 show of Flights of Wonder which is good to see, I just wish it was permanent.