iTunes won’t sync my apps anymore

I haven’t synced my iPhone 4s in quite a while so I decided to do it on Monday, (1/21/2013). iTunes needed to be updated, so I let that run first, and once it was finished, I started the sync. I was watching an online video when the sync started so I was a bit distracted, but still, I knew the sync went WAY to quickly. So I decided to do it again, and again the sync finished very quickly. When I tried to navigate around the iTunes app, I had a hard time, because they’ve changed things up quite a bit. In the end, I managed to get to the computer’s apps, and lo-and-behold 93 apps needed to be updated. Which meant they WEREN’T syncing with my phone like it used to. After 20 frustrating minutes I finally figured out how to make it work.

Navigate to Devices, choose your phone, then ‘Transfer Purchases’ or hit ‘control-s’ to bring back the side bar that iTunes USED to have choose your phone and right click to get to the ‘Transfer Purchases’ selection. That makes the updated apps from your phone transfer to your computer. That is it MAY work if iTunes decides your phone is actually connected. For some reason my iTunes keeps disconnecting the phone so it doesn’t show up in my device list. I got around it by unplugging the phone from the computer and re-connecting it. I have NO idea why iTunes keeps doing this. I haven’t figured that problem out yet. If you do let me know.

Phone: iPhone 4s with iOS 6.0.1

iTunes: 11.0.1.12