The only Dreamwave stuff I have is the trades of their Generation 1 stuff. I'm planning on getting The War Within, since I heard that was good.
I'm also partial to the stateside series Marvel did in the 80s, since that was the one book I consistently read and purchased growing up.
Titan Books collected the series into trades.
Book 1: Beginnings (Issues 1-6)
Book 2: New Order (7-12)
Book 3: Cybertron Redux (13-18)
Book 4: Showdown (19-24)
Book 5: Breakdown (25-30)
Book 6: Treason (31,32, 35-37) Issues 33 and 34 were a reprint of the first Marvel UK story "The Man of Iron"
Book 7: Trial By Fire (Headmasters 1-4, and Issues 38 and 39)
Book 8 Maximum Force (40-42, 44 and 45) Issue 43 was the comic book version of "The Big Broadcast of 2006", an episode from the cartoon series.
Book 9: Dark Star (46-50)
Book 10: Last Stand (51-55)
Book 11: Primal Scream (56-62)
Book 12: Matrix Quest (63-68)
Book 13: All Fall Down (69-74)
Book 14: End of The Road (75-80)
And if you liked those, Titan Books also collected the stateside Generation 2 series Marvel did in the 90s.
Book 1: Dark Designs (1-6)
Book 2: Rage in Heaven (7-12)