You files shouldn't be deleted but you could just rename or move the folder they are in before uninstalling. Mine wasn't when I switched to frostwire. I didn't have a choice as my internet provider now blocks connections to limewire as they did to other file sharing networks as they became popular. Frostwire is the only one I can connect to as I have tried many. Speeds are pretty good but I think limewire was only slightly faster.
Consoles owned: 80GB PS3 w/bc, PS3 Slim 120gb
PSN: Yubitme







