Hey Foil, I actually didn't use the tool for recovery install; I was impatient and used dd (from another thread). Thing is one thing in those instructions was to make a backup of the stock recovery. Does your tool not do that? The other thing was renaming a file whose sole purpose is to flash stock recovery on boot. So I'm thinking in my case all I really have to do is rename that file and stock recovery will be installed on boot (as initially intended by Ouya). Just realized I can't test this ATM since I've installed the stock plus ROM, and I don't know if it's different in this respect.
Point being, this seems a relatively easy add to your toolkit (which is already awesome).
Cheers.
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Thank you for the info., but no, my program doesn't do that..it just pushes a temporary cwm boot image, and then the user decides whether to install it permanently from there. I had tried to make a backup of the stock recovery image before, but was unsuccessful. I'll give it a other try now though, if you say that it works.

Thank you for the compliment! It still has some work to be done, but it does everything that I've needed it for, so far haha.
If I can get a working backup of stock recovery image, I'll definitely implement it, thank you.