OK, here's what the WYN seem to do to the ships they convert.
Round all fractions off to the nearest whole number.

Multiply number of Crew Units by 9/10.
Multiply number of Boarding Parties by 2/3.
Add another DAMCON box, at +2 over the highest rated box on the SSD before.
Half of all SHUTTLE boxes are converted to FIGHTER.
Add 1 mech link to each TRAC bank, and double the number of previous mech-links.
Probes are replaced with DRN-B.
Multiply each SHIELD by 5/3, shield cost does not increase.
Multiply number of WARP boxes by 4/3.
Double the number of Torpedo and Drone weapons.
If you have more than 6 drone racks, add Double Sensor Control.
You may replace one or two PH-1's with Torpedo (if it's a 1 space weapon).
Replace all PH-2 with PH-1.
Add one ADD-12.
Finally, if you allow the WYNs to have this, add Ability to Double Reactors and
Ability to Double Engines.

That's all folks