make also has an option of automatically detecting all loaded modules (via 
lsmod) and compiling the kernel only with support for currently loaded modules. 
Use make localmodconfig for that.
Running it in a vm wouldn't be such a good idea since the module config for 
dom0 and appvms differ greatly however localmodconfig allows for the lsmod to 
be exported from another machine. So:
in dom0:
lsmod > lsmod
qvm-copy-to-vm <build-appvm> lsmod
in build vm
make LSMOD=/home/user/QubesIncoming/dom0/lsmod localmodconfig

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