I was able to "fix" this by moving the code that adds the Header and Footer as controls from the CreateChildControls() method to the CreateChildControls(IEnumerable datasource, bool databinding) method (before and after the foeach) in the respective EntityRepeater classes.
This, however, caused a <span> tag to surround the <table> tags.....
I'm going to look in to this some more and get back with you.
I'm outside ur box, shiftin' ur paradigm.