Yep, Removal is rated a "1" and sewing the damn thing in has been like an "8" out of 10. I am going to get some double sided sticky tape to hold the window in place while I sew it in. I have found that making a couple stitches in various places around the window has helped, but the first try my window was off 1" to the left and I had to start over, thank god I only put in 4 stitches when I noticed.
I started to take the top off, but after reading up on it, it was as much as a chore as the window replace. Good news is, if anybody tries this they will have the advantage of learning from my mistakes.
Link for removing the top. It takes a few seconds to load so give it time.
http://images.wikia.com/boxster/images/e/eb/DIY_Boxster_Conv_Top_Canvas_R_R.pdf