I hope you read this as me trying to help and not being critical. Your plugin is desperately needed and I'd like to help out in the little ways I know how. Mostly by commenting in forums like this.
A few development requests:
1) AJAX
When I began my first custom post type (CPT) at the same I filled out a taxonomy. When I submitted my CPT it cleared my taxonomy.
2) Semantics
Object Type:
I was able to deciper that the object type correlated with the CPT, however, for the “common” user (to be nice) this might not be as straightforward. Some quick text instructions would be helpful.
Hierarchical, Query Var, Rewrite:
? I assume that this is programming speak. Hence my confusion as a non-programmer. I look out for us common folk and know that this would cause eyebrow raising. You can use these terms, but hints and tips help as to what difference they make. I see the “?” next to these terms – maybe you're working on hinting in the next release
3) CPT UI dedicated panel
Usability would increase if the following were option listed under a separate CPT UI settings panel
Manage Custom Posts
Manage Custom Taxonomies
Because all these options are on one page, options are hard to browse and are overwhelming.