The 3 aforementioned words have various meanings including "friend", "friendly", "dear", "to like", "to love", and interestingly also "to kiss". A related noun φίλημα even means "a kiss". This was the key that made it click in my mind; years ago in one PIE resource that I found online a root *b(h)u(s)- was listed with the meaning "lip, kiss". I wish I could find a cite for this one, as it doesn't turn up in any of the usual lists of roots that I check with, and can't think of any words that definitely derive from it.
But perhaps it was the zero grade form of a root *bhwes- which could have had the suffixed forms *bhwes-lo- and *bhwes-lyo-. These would likely have derived to φίλος and φίλιος, respectively. Notice how the latter parallels the hypothetical *gheslo-, which in its suffixed form may have been the root of χίλιοι.
Is it reasonable to assume that *bhw- would have derived to φ- in this way, and might the verb form φιλέω be explained via the stative -ē- suffix?

