Changing boot partition from logical to primary

So I previously booted to my Windows 8.1 from a logical partition. First I want to know how exactly is that possible. Does it hold MBR record on a some other primary partition?

I have two disks: Samsung and Seagate. My Windows is on Seagate disk, on C: D partition (which is now primary but before it was logical), and I can't boot from that partition, I can't even boot from that disk, I boot from Samsung disk eventhought I don't have an OS installed on it. So why is that so? My guess is that, a D partition still holds its boot record on that Samsung disk on some partition, so it boots from there.

So how do I fix that so that it boots from Seagate disk from D partition? Here's a picture of my MBR's. Partition C: D is active, I have checked it. I know C: D partition is marked as boot partition on a picture, but if I try to boot from that disk it fails.

And there is also one thing more that I think can also be a source of a problem. And that is, I had Linux installed on E partition; and when I installed I had a problem that I could no more boot to Windows so I simply formated that partition and now when I try to boot from that disk it tries to boot Linux and it fails, end enters GRUB rescue. But even before installing Linux I also remamber I needed to boot from Samsung disk to get to Windows.

Hope I was clear enough...

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