Just my update:
1) Seat Reservations: 7/8 intact, 1 vanished
2) Upgrades: One of my itineraries is a mess (has a mix of GPU's and RPU's applied). One of the domestic itineraries has me wait-listed for ON (which I guess is a known issue). Also C on a 3-class config is now called BusinessFirst? I know there was a thread on this before, but I'm somewhat confused.
3) Miles: Very weird, so I see the transfer of UA miles in the transaction listings, but the total doesn't show an updated value. Lifetime miles are correct, but this year's EQM is wrong.
Logging out and logging back in fixed the miles. Seat assignments also stuck

Now, I'm willing to forgive all of this if my flight tomorrow goes well