Figured it out
I used dc2.exe
Just in case anyone will ever be on the same quest here are the steps (Vertical monitor only):
1. Download dc2
https://12noon.com/?page_id=641 and extract to Fix it Felix dir.
2. Download Fixed it Felix Wrapper
http://dragonking.arcadecontrols.com/static.php?page=AboutIFIFJ3. Settings for Fix it Felix attached (only thing you really need to change is zoom level to 50% and orientation to display on vertical monitor)
4. Create bat (FixitRes.bat) with following settings:
start /wait dc2.exe -configure="fixit.xml" -temporary
start /wait FIFJ.exe
dc2.exe -restore
5. Go to cmd, change to directory with Fix it Felix and dc2
Execute
dc2 -create="fixit.xml" -active
6. Edit fixit.xml and only change the following parameters:
<size width="320" height="240"/>
<refresh numerator="0" denominator="0"/>
<scanlineorder value="Unspecified"/>
7. NOTE This does not work with super resolutions so make sure you have 320x240 supported
8. Launch FixitRes.bat. When you close the program it will return to your desktop resolution