No, it wouldn't be messing up your ipod's software or anything like that... it's probably just a really crappy connector on the bottom of your friend's speaker system. Make sure your ipod is in your dock nice and snug, and all should be fine. If the iPod refuses to come up, you can always do a reboot of it (just hold the menu button and the center button). This just restarts the iPod, retaining all of your music.