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I have three tables with modules set up for two. For example:
dogs: name, age (module)
treats: title (module)
dog_x_treat: dog_id, treat_id
If I have 3 treats and set my dog to like all of the treats in the New or Edit form, the MtM input box disappears. If I go and manually remove one of the associations in the database, the form re-appears. It seems that when all rows are associated to the object, it has logic to now show the input. This a problem however, should my dog's treat preferences change, I have no way of editing it as a front-end user.
I'm digging through the /core to try and make a fix. Having trouble finding the right files though. I'll be sure to make a pull request on Github if I patch it.
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This is fixed in the development branch. I'm not sure if it can be dropped-in to RC2 or not, but here's the development branch's drawing code for Many to Many:
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Just found it too. Thanks! Line 64 GRRR.
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