I have this problem since 0.16.0, never had it before that.
I do alt-tab alot to go to my second monitor, but before 0.16 that never was an issue
The only mods I run are RSO and ore-eraser which I don't think have any impact on this issue because I've used these mods for quite some time.
I added the save file of the map I use in case you need it.
My graphical settings:

I also don't think my PC specs are the problem here but anyway:
Processor Intel(R) Core(TM) i7-5820K CPU @ 3.30GHz
Video Card NVIDIA GeForce GTX 980
RAM 16 GB
This is the "time usage" tab when everything is running OK:

So the actual issue:
Here you can see that sometimes the fps AND ups drops to around 40 while my base is not large enough by far to dip under 60.

Sometimes it even goes to 30 fps and ups...


It can also happen that the fps dips to 30, but the ups stays at 60.

I will do my best to give more information if needed. I hope it can be fixed, cause it can get quite annoying sometimes.
EDIT: some fixes