Just wanted to post to say big thanks to jayjay123 for the idea on this and to share some learnings I made. I've just performed the operation myself (fitted a Alfa APA-M25 directional antenna) and the increased range is significant enough for me to now reach my lounge where I couldn't before.
One thing I would note, I think there is some confusion around which antenna should be replaced. The gamepad antennas are hooked up to the Hon Hai Mic-B2 board, under the mainboard. This board is 5Ghz only, and only deals with gamepad comms. The gamepad antennas are the rear most antennas, on my unit they were hooked up with red and grey wires. It's one of these you want to swap out for an external antenna. The antennas hooked up with black and white wires are from the Hon Hai WinA2 board, which is the regular Wifi networking board and is dual band 2.4GHz / 5Ghz. I imagine if you replace one of these you might see a small boost in Gamepad performance due to reduced interference having moved another potentially competing 5GHz antenna a little further away, but you're not directly improving the gamepad comms.
Couple of other notes that might be useful if anyone else tries this...
1) If you don't want to solder, you can buy pre-made wires to fit to the Mic-B2 board - search for U.FL to RP-SMA pigtail cable (assuming your new antenna is RP-SMA). Getting at that board does mean completely dismantling the Wii U though, soldering is probably easier
2) The Wii U broadcasts an 802.11n wireless network for gamepad comms, I found it really useful to use a wifi scanner (I used the Airport Utility on my iPhone) to track the quality of the signal with different antennas and antenna placements. It shows up as "Network name unavailable" with a MAC address beginning 8C:CD:E8 - that's Nintendo's ID.
Thanks again jayjay123 and I hope this helps others out...