I forked mid-kid's build of rxTools which has CakeHax instead of gateway rop. Like his fork, this boots from MSET 9.x as well:
http://gbatemp.net/threads/release-cakesfw.391200/page-28#post-5560244
(the important bit I did was disable encryption of filepack. You can probably merge that with the main branch once you have CakeHax added.
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I was suppose to post that post here. But mistakenly posted it there instead. Oops.
Long story short that includes a compiled version of rxTools that will work with MSET 9.x. Note this fork has a bottom screen splash logo and breaks Ninjhax. But on 9.x, it gets along very nicely with MSET entry point. I don't know about MSET 4.x though. I'm thinking that should work too.
Note theme graphics isn't working with current github source even from Ninjhax. I'm guessing you are planing on packing theme to a new location in rxTools? Usually logo graphics and such is packed using filepack.h. So you'd have to recode filepack or find an alternate way of packing the new new files into rxTools. I don't think they are currently being packed in during compile. So I have no clue how you guys are actually testing that. [emoji14]