I think part of the issue also was the wires laying underneath the pickup, adding height, and giving me fits about seating it all the way down and fairly level. It looked as if the top of the PU was nearly to the top of the saddles.
I trimmed the rubber pieces and can make it fit better, but don’t feel it’s right. So I’m going to run to a local Guitar Center this morning and get some replacements since I need pickguard screws anyway (newbie mistake, I didn’t think of ordering these lol) and will try to seat it again today and post pics.