Hi, Travis; I can almost guarantee you that it isn't a warped flywheel. My first question would be: Did you have the flywheel resurfaced or replaced? Were there 'hot spots' on the flywheel or pressure plate?
If you didn't have it surfaced, these 'hot spots' can cause a chatter when engaging the clutch. A rear main seal leaking onto the flywheel can cause the disc to slip and chatter. Although rare, could be a faulty pressure plate (assuming you replaced it, which you should have). Be sure to have some free-play
when you initially adjust the clutch (if it's adjustable...some hydraulic slave cylinders aren't).
Good luck. Loren