Leave the TIEs to your wingmen and head for the base.  The SRS Cruiser is controlling all of the prototype Starfighters, so you will eventually need to take it out.

However, it is more efficient to concentrate on other ships - most of the prototypes have yet to leave the hangar. 

If you just want to stop the prototypes, first destroy the Hangar containers, followed by the SRS cruiser, and finally the transports (which are trying to deliver pilots to the as-of-yet unmanned ETR Suluk group).

Tour of Duty Two:
Mission 1 | Mission 2 | Mission 3 | Mission 4 | Mission 5 | Mission 6

Table of Contents:
Systems Help | Prologue
Tour 1 | Tour 2 | Tour 3 | Tour 4 | Tour 5 | Tour 6 | Tour 7

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B-WING Green

Proton Torpedoes

Chaff
 

B/W Green (6)

X/W Red (8)

No Reinforcements
 

(100) Destroy
TRN Tasson

(50) Destroy
ETR Suluk [4x]

(150) Destroy
CN/Hgr A-1

(150) Destroy
CN/Hgr A-2

(150) Destroy
CN/Hgr A-3

(150) Destroy
CN/Hgr A-4