I think it's FRAPS' job to be compatible with all software, not all software's job to be compatible with FRAPS.
I can see what you mean, unless it's a case where Node Webkit used to work with Fraps just fine. The idea to split the node webkit and C2 downloads broke it. That would mean the compatibility issue is on your guys end, not Fraps.
It's also horrible with every other screen capture option which is making the marketing, and promotion of our games much more difficult. Hopefully you guys consider the feedback, and not the criticism.
On the topic, the best alternative I found so far that can capture 60fps is OCam. Unfortunately not as solid as Fraps, please fix this bug.