well, before my house was broken into, and my entire collection thrown onto the floor (except my G1's O_o) they were all sorta mixed. I have them all off the floor, but not displayed right now... WAY too much damn work to re-pose and display over 250 knocked over figures.
Anyways, I had them all grouped, mixed faction. All AEC and Titanium toys were displayed with eachother, mixed up on a wall shelf unit, and a bookcase with my Movie figures. I had all my Alternators/Binaltech on a dresser, organized by Faction, with the Masterpiece Starscream, G1 repaint SS, and Skywarp sitting behind them.
And I have a bookcase that contains all my G1's (arranged by faction and size)
Along with other random figures, like a Micromaster shelf, Beast Wars shelf, G2 shelf, re-issue box shelf, and my old-G1 beat up broken toys shelf, hahaha