From what I'm reading, you are doing "in-wall" wiring using Ethernet patch cables. If that's the case, I see two possible issues with your work. Firstly, patch cables use stranded wire while the bulk type rated for running through walls is solid. As well, the flat type patch cables tend to be a thinner gauge. When you punch down the wire in a wall connector, the solid wire is pinched between knife edged gold plated metal that strips the plastic wire to make the connection. The type of wire used for these connectors is generally 23/24 gauge. Those flat cables go 28/32 and, being stranded, might be getting cut into pieces and not making a solid connection. For use in the walls, don't use stranded patch cable but get the proper type with solid wire of 23/24 gauge. Avoid the type marked as CCA which is copper clad aluminum, however. as for cat5e and cat6, these can be mixed and problems should not occur within a simple home network by mixing them. Hope this helps.
I installed a new network wall jack in my home office and ran an Ethernet cable from the modem in my basement to it. The cable is Cat6, and before I cut off one end of the connectors to wire it to the jack, I plugged it into my computer to test it and it ran fine. To my knowledge the jack is wired correctly (it's 568B) but when I plug a second network cable (also Cat6) into the female end of the jack and into my computer, I'm not receiving a signal.
The cable itself is flat, and when I stripped it I was surprised to find that the white striped wires were just plain white. Because it's flat, they are also not twisted with one of the colored wires for easy identification, although they do appear to be paired with one, so I used that to ID them.
I took my tower down to the basement and plugged the second cable (the one that will connect the computer to the jack) directly into the modem, and got a signal there, so I've ruled out that it's any wiring problems with either cable. It has to be the connection at the jack. I believe it's wired correctly, but just to be sure, I tried all 24 combinations of the white wire in case I IDed them incorrectly, and still no luck. My last guess is that the jack says it's Cat5e, and it's incompatible with Cat6 cable, but it sounds like that shouldn't matter. I don't know what else to try.

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