The slowness I find I think its related to the continual view. What happens is I ran I ton of large queries, and then the window lags when I scroll. I should be better about limiting my queries when I only want to see a few records, however I am so use to sequel pro where it shows you the first 1000 by default.
If you get too many queries you can hit Cmd-L to clear the display in Terminal. I recently also added a cancel command to stop queries when you forgot a limit clause.
I know the Terminal in PG Commander isn't for everybody; maybe I'll change it in a future version.