Thanks to Seibertron.com, from where I stole many of the following images. Italicized titles are for those figures which I desire, but do not yet possess.

Dirge

Classics Dirge (Botcon Exclusive (Deluxe class)h5>
Generation 1 Dirge
Revenge of the Fallen Dirge (Deluxe class)
Universe (Classics 2.0) Dirge

This Dirge was sold in a Target Exclusive 2 pack with Autobot Roadbuster, titled "Autobot Ambush".

Megatron

Animated Shadow Blade Megatron

Nemesis Prime / Scourge

Optimus Prime

Classics Optimus Prime (Deluxe class)
Titanium Optimus Prime (War Within)

Ramjet

Classics Ramjet (Deluxe class)

Generation 1 Ramjet

Revenge of the Fallen Ramjet (Voyager class, Walmart Exclusive)

Skywarp

Alternity A-04 Okamora Orochi Skywarp

Preorder from tfsource.com
Animated Skywarp (Voyager class)
Classics Skywarp (vs Ultra Magnus) (Deluxe class)

Classics Skywarp was released in a Target Exclusive 2 Pack alongside Ultra Magnus. The pack was titled "Battle for Autobot City".
Revenge of the Fallen Skywarp (Voyager class, Walmart Exclusive)
Titanium (War Within) Skywarp (SDCC 2008 Exclusive)

Starscream

Alternity A-04 Okamora Orochi Starscream

Preorder from tfsource.com
Classics Starscream (Deluxe class)
Titanium (War Within) Starscream

Botcon 2008 Shattered Glass Heroic Megatron Botcon 2008 Shattered Glass Heroic Starscream Botcon 2008 Shattered Glass Evil Optimus Prime

Sunstorm

Titanium (War Within) Sunstorm

Thundercracker

Titanium (War Within) Thundercracker

Thrust

Generation 1 Thrust
Generations (Classics 3.0) Thrust

This figure was originally released as an exclusive at Botcon 2007, it will be reissued in the new Generations line fall/winder 2010. More pics.
Revenge of the Fallen Thrust
Titanium (War Within) Thrust

Ultra Magnus

Animated Ultra Magnus
Animated Roadbuster Ultra Magnus
Alternity Binaltech A-01U Ultra Magnus (e-hobby Exclusive)

Preorder from tfsource.com
Armada Ultra Magnus
Energon Ultra Magnus with Knock Out and Space Mini-Con Team
Classics Ultra Magnus (vs Skywarp)

Classics Ultra Magnus was released in a Target Exclusive 2 Pack alongside Skywarp. The pack was titled "Battle for Autobot City".
Robots In Disguise Ultra Magnus
Titanium Ultra Magnus
Titanium (War Within) Ultra Magnus