Front panel USB connection to MB 990fxagd80v2

Hi Gents, new member here with some issues on me last build. I assemble my families computers , about one every 5 years. Other than that I am not hot in computers. So when I get into a build I have some homework and studying to do, and some glitches. At this moment my newest machine is up and running Win 7 with a few loss ends. My case is an USB 2.0 era with 2 ports in the front bottom behind a little door. Each USB cable has 3 wires ending in a flat 3 pin female plug. The motherboard has 2 USB male ports, 9 pins each, one coded blue the other red each one has an alignment notch. This MB came with a sack of M-connectors to be an easy transition between the front panel plugs and the Motherboard, so, 2 of the M-connectors are red and blue, and have alignment lugs that appear to be made for the USB ports on the MB. The problem is they do not fit. While I am gentle and careful I don't believe they fit. I have other front panel issues I'll save for another time. My Gazelle case seems to use different nomenclature than the motherboard. But the USBs are the issue now, anyone have some light on this subject? I would also like to convert one of the front USBs to 3.0.

"Each USB cable has 3 wires ending in a flat 3 pin female plug."
 That can't be right as USB are 4 wire, red, white, green, black. Connectors are 5 or 10 pin plugs with no connection on the 5th pin not used on both types & 9 being the key on the 10 pin plug.
"I'm not sure is I have a variation from the standard MB or what..."
 Any connectors, MB headers are standard throughout the industry therefore they will be the same from all manufacturers.
"or is the connection does not use m-connectors"
 You should not need m-connector for USB anyway. m-connector was introduced mainly for front panel connections that had individual wires for each LED, switches and such. The set in the pic I show is from old P35 MB.
 Can you post a photo(s) of the case connectors you have?
 See here how to add photo's: https://forum-en.msi.com/index.php?topic=90789.0
 Personally I use Photobucket to host my pics.
 M-connectors for USB should be clearly marked as such if the MB even came with any for USB. Over the years they have eliminated some and I think the ones for USB were eliminated.
 USB plug:

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