Datalog Questions

So far the only bolt-ons I have are a PRL Short Ram Intake ( Race MAF ) and a PRL catless downpipe. I did not take any logs prior to the downpipe being put on either. I just recently started doing some logs and noticed that the STFT and LTFT seem pretty far off, but the AFR seems to be near target throughout the drive. When I saw this, I took off the high octane +9 psi tune I had and returned it to a stock tune ( I still have the Race MAF and secondary O2 sensor disabled through the tune ). When WOT or shifting it seems to misfire and K. Retard goes to 5 degrees, but does not occur during normal driving. I was just wondering if there is an issue, or if I can change something to fix the STFT and LTFT so an issue doesn't occur in the future. I'm new to this, and this is only my second car so I have no idea what I'm doing so I appreciate the help. I should also add that I am the second owner and I have no knowledge of how the car was treated prior to me owning it. I am approaching 40k miles and only do pulls from time to time. I mainly drive like a grandma as I don't have a lot of money and I like having good power while still being able to maintain 40-45 mpg