I decided to make a version of the mod that requires Hyperspace to be installed. This means that the ships can be added to a separate page instead of replacing the vanilla ones.
Hyperspace: subsetgames.com
I have tested this mod with version 0.6.2 of Hyperspace.
Use Slipstream Mod Manager to install.
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FTL
Custom Ship
Mod
Junk Ships
Hyperspace