I've used it in both place ( my current machine will only allow it in the bobbin, it can not "see" it on the top side)
I loved the look of invisable thread. A lot of ppl have said not to use it in bobbin, but I've not had a problem.
I'm with MARIPOSA.... I sew mine on the back first then fold over and stitch down on the top ( just covereing the stitch linewith the binding)..... I wont say it saved my sanity, I think I lost that years ago but it sure makes it easier.