Here's a quick-n-dirty solution that costs nothing, is easy to do, and it just might work:
You have NOTHING you need on the old internal, is this right?
Then...
1. Open Disk Utility and ERASE the internal drive. I'd just choose Mac OS extended with journaling enabled, GUID partition format.
2. Does it erase? And then mount in the finder as "an empty drive"?
That's what we want.
3. Now, download the free utility called "Semulov" from here:
4. Launch Semulov -- it appears in the menu bar on the right
5. UNmount the internal drive with Semulov. I'm going to GUESS that when you do this, the internal drive will "spin down".
6. Does this work? If it does, "what works, works". You WILL have to unmount the drive after each reboot, however.