If I run the pop/click filters too aggressively, it removes too much. My ears are much more used to hearing and ignoring pop/clicks than they are at ignoring holes in the music. On some songs I'll have to run the "passive" setting and just let some of the pops go. Now that I've figured this out, I'll have to rip that Dinah Washington record again.
Just did a Kingston Trio record and it sounded bad. I re-filtered my original *.wavs and it sounds a lot better even though I can still hear some pops.