Bike dying after it warms up

[Kaos]

Somewhere i hope you mean aux 2 with the 2 output ports, even when its aux 1 or 2 you're overdrawing the ports.
Luckily it is quite an easy fix and also multiple possibilities.
Best practice is feed the fan from aux 1 and another 12v switched, usually this is the  connector cable for the speedo.
now you can feed the fuel pump without relay with 2 cables running from both aux 2 ports, each are 12v or run both to the relay. this gives room for another output in aux 2. 
Ecu is best to connect to the power connector on the motogadget itself you will have the ECU "behind" the fuse in this way. or a separate wire from the battery.
Using a separate cable from the battery to feed the ecu also gives the option to feed the fuel relay Activated by the ignition output from the m-unit.

kickstand should be on stand input and a ground then it acts like a push button for the m-unit. This config requires a setup modification in the App.
It doenst have to be connected to the ecu to kill the bike.

Good thing is, we know the fan works because it draws. But you might want to give it a spin by hand and see if you feel any resistance spinning it. If you do feel resistance it will overdraw to start up.
The fan itself should feel like a common house fan. If you feel resistance you can spray the rotary part with some dry chain lube so it wont gunk up, works like a charm. just let it dry for a little bit (5 min or so)

Also, the fan can be directly put into the aux port without relay (for both testing or daily usage). Or any port for testing.

It does not specifically have to be the fan itself that is the problem, but current setup definitely overdraws when the fan is activated.
 

[sooprvylyn]

I'll try it. Oddly I didn't get any overamp using the aux ports for all this before I cleaned up the wires.

I don't actually have a kick stand switch on my bike, but (iirc from the wiring diagram) the ecu needs a pos input coming from the kickstand switch in order to allow the bike to run, so it needs that pos output for sure. I worry that connecting the ecu direct to battery and not to switched power may cause parasitic drain when the bike is off. Will it not?

The fan is a brand new spal unit, I know it's working as it should(sans whatever relat issue might be happnening)

The aux outputs on the m.unit should all be 10amp fused...didn't think I was drawing that much, but perhaps I am..tho i kinda feel like it might be a short since the running draw is well under 10amps before that fan kicks on.  I think the fan relay output pos should probably just connect to the m.unit pos terminal since it won't draw til triggered.

Anyway, I have some wiring to play with, and I'll reread your comment carefully when I get on it to make sure I'm catching everything you suggest.

[Laitch]

I don't actually have a kick stand switch on my bike, but (iirc from the wiring diagram) the ecu needs a pos input coming from the kickstand switch in order to allow the bike to run,

Motronic 2.1 fuel pump/side stand/Motronic control unit interaction.

[frankenduck]

FYI:

On 93 and earlier 4V bikes the side stand switch sends 12V to the fuel relay.

On 94 and later K1100s the side stand switch grounds the Motronic and starter relays.

[sooprvylyn]

I'll have to check the wire color again when it's in front of me.  I pretty quickly checked a wiring diagram and the wire in question seemed to go from side stand to motronic...though I could have that wrong since it was a quick review for like 20 seconds after I pulled the guts off y bike and opened up the wiring covers coming from my Aux 1 output when I decided to leave it for later.

[sooprvylyn]

My bad, pretty sure it was the clutch switch(also not on my bike), connection 9 on Laitch's diagram.  Wire is Green/Black IIRC...tho operating off memory as Im not in front of my guts.

[frankenduck]

BMW diagram:

[Kaos]

You can stub off the following wires comming from the ecu connector using a motogadget:
- Green/yellow (sidestand)
- Brown/black, grounding connector  for a relay,
- Brown/blue, grounding connector for a relay,
- Blue/Black, (dont remember its original use, dont confuse it with black/blue RPM)

Green black should run to ignition.
Clutch is yellow black.

M-unit outputs shouldnt have to be connected to a fuse because the m-unit has a failover.
The startup of the fan is a combination of draw, especialy when using a relay, the sensor has currency which starts to send signal when reaching 90celcius
Opening the relay which then starts to draw for input to the fan, the startup of the fan can draw up to 24volts -iirc-, dont pin me down on this.
all the while you have connected it to a 12v output.

Anyway, here is your diagram modded for m-unit use.
and my m-unit wiring diagram with all optional routes for connecting to the m-unit.
 [ Invalid Attachment ]

SwapWiringDiagram.png (49.26 kB . 768x399 - viewed 263 times)

side note. The wiring diagram is the one I currently use facing no issues on power draw. BUT it's designed to run a 2valve bike on 4valve electronics.