I started a new game (no mods) as the Iridium using the Opt-In 1.4 patch, and set out to create a short-range colonizer.

1. Went into ship-designer, select ship Settler M1, select Use Design.  Note that it has one hyperdrive and Moves 2.

2. Removed all Life Support modules by double-clicking on each one in the components at bottom of screen.

3. Added a second Hyperdrive.

--> The ship details shows Moves 3 with 2 hyperdrives, but the components display at bottom still shows only a single Hyperdrive.

If I save the ship and then reload, it has 2 hyperdrives (as expected), so this looks like a screen refresh issue in the edit screen.

Screenshot here: https://www.dropbox.com/s/24oae6v6ox0fuyy/2015-10-16%20GC3%20missing%20hyperdrive.jpg?dl=0