I have just had same kind of problem in a Colonial Upsing game, running more than 45 days (it run 68 days).
I also made a ticket and Boris answered me this:
until day 120 all battles will count. If a player got inactive you won't get any points for these battles but the results will influence the "versus AI"-stats.
I have not asked him (yet) if that goes for every battle made including those that were fought while the enemy still was "human" so to say.
But what is worse: Even the battles I fought the last 3 weeks against humans (3 of my 4 enemies fought to the last) wasn't added to the servicerecord - at least not with a number I could recon. And even-more-worse: I checked one of my enemies, where I knew for sure he lost fighters and bombers (and I did too). On his service-record there were a big round Zero for both unit-types in kills and looses. And that is 100% a fault.
Funny? Well I don't think so.
had same I guess two weeks ago
no update for like 4-5 days
stats will come eventually when server will reboot or something
Generally the update is from 2 to 5 days.,
After will update directly and will make big jump or lose big.
I have just mailed Boris back, that I'm not the only one who think our personal service records are not updated as it is supposed to be.
Now let's see what happens.
I do also in chat hear several people about it and will make sure to pass it on to my higher ups to see if they have more information. Thanks for informing us.
2 weeks passes, any news? 
processing......
my counter changed today, so maybe its working again. seems like some data of the last 2 weeks got lost..
ehh and I was grinding hundred thousands of points on 2 * 500s 
"Bytro, Give me back my legions "
As far as I know the stats are ones again updating sadly, according to my information it's not possible to add the lost stats to it. We apologize for the inconvenience caused.
