The repairs in SF also included some overhaul changes. Here is a website with the history of the ship:
http://usspennsylvania.org/WarHistory.htm
At PH, the Pennsylvania took one 250Kg bomb hit that destroyed a 5 inch gun mount and it received debris and damage from the destroyers that were in dry dock with her, especially the Downes which had two torpedo warheads explode. The delays getting the Pennsylvania underway to SF had to do with her propellers being removed and the general chaos that put lightly damaged ships on a very low priority for a while. The Pennsylvania had been scheduled to leave dry dock on Dec 6, but some delays in the work had left her in dry dock over the weekend. If PH hadn't been attacked, the Pennsylvania probably would have left dry dock on the 8th or 9th at the latest.
I would give her a little major engine damage to reflect the removed propellers, knock out a 5 inch mount with some Sys damage. She had no flotation damage at all.
That is if the goal is to reflect the actual damage at PH.
BTW, the above link says the Pennsylvania was operating with TF 1 starting in February. TF1 stood by in the middle between SF and Midway during the Midway battle. If there was some perceived need for the battleline, they would have been called in.
Bill