Just wanted to add to this that there is another Autofit issue where I have to apply the profile twice for it to work correctly, unless I first strip the ship before applying that profile.
Original:
Spoiler
(https://i.imgur.com/et2hcWl.png)
Autofit profile:
Spoiler
(https://i.imgur.com/Ds7I0Yl.png)
After applying profile (missing front shield conversion):
Spoiler
(https://i.imgur.com/g0Cm2Ao.png)
If I then apply the autofit profile again it works correctly, or if I strip the ship first then apply the profile it will work the first time.