SCT is the way to go in our opinion, we have done things with it that last year simply could not be done. It also has the added advantage of being "on the fly" for people planning future modifications, once you purchase the tool itself, you are only dealing with tunefile edits, a small cost in comparison to a flashing service fee every time where you send your PCM in.
Like Roe and DC, we also offer SCT Flash Tuning as Chimazo pointed out above, though we lean more towards custom tunefiles than "standard" files, though we can do both. Have done some pretty neat things here, from OEM PCM controlled 1000cc injectors, to turning PCM's into "mopar performance" PCM's for those who cant find one or need to pass emissions, to editing hardware switches to aid in fixing other issues related to cars of a custom nature.