X-post from UA/CO Consolidated forum where there is a similar thread:

Same thing happened on my CDG-FRA-MEX trip on LH a few days ago. My girlfriend got the full mileage with 150% bonus (but no EQM) and I got only the bare miles with no bonus nor EQM whatsoever. We were on same ticket number and both of us had the FF numbers on our tickets. Outbound before New Year we got all the miles correctly added to the accounts.

I've written to OnePass but don't expect to hear anything for several weeks, which is typical response time.

Also, really bizarrely, my Activity Summary is counting from 28 November instead of from 1 January but isn't showing any EQM whatsoever.

It's really weird, but the good thing is there's no rush in getting these miles registered so I don't care how long they take. Just make sure to save those BP stubs.