I have ran into this problem a few times. Basically your ships should be firing in the right direction. All that is wrong is the DefaultCore.txt file has incorrect weapon archs or missing hardpoint info.
On the Akira Class it looks like your DefaultCore.txt file has more hardpoints than there are in the .gf file.
On the second image, the Galaxy varient, find (in DefaultCore.txt) the primary hardpoints with the weapon arch 180_240 and 0_360, switch only these weapon archs. DO NOT CHANGE THE HARDPOINT NUMBERS!!! Here is an example.
Chage this...
PrimaryHP:1:0_360:2:180_240
...to this.
PrimaryHP:1:180_240:2:0_360
On the third image, the Galaxy varient, I take it you want the 2 forward archs to be facing...forward.
To do this you will have to figure out which 2 hard points are where. You will need to switch a 330_30 with a 165_195 in the Heavy Hardpoint section of the DefaultCore.txt file. When you look at it, it will have 2 of each of these looking like this...
HeavyHP:12:330_30:13:330_30:14:165_195:15:165_195
I have no idea which ones to change so you will have to do a trial and error approach. It will one of the following two lines. Probably the first one.
HeavyHP:12:330_30:13:165_195:14:330_30:15:165_195
HeavyHP:12:165_195:13:330_30:14:165_195:15:330_30
On the Defiant pic I'm not even sure what is wrong there. It just looks messed up. I hope I helped ya out.