Mentioned in SAL (#wikimedia-releng) [2017-12-24T16:07:26Z] <Amir1> ladsgroup@deployment-tin$ mwscript extensions/Wikibase/lib/maintenance/populateSitesTable.php --wiki=wikidatawiki --load-from https://en.wikipedia.beta.wmflabs.org/w/api.php (T183633)

@Addshore my script should fix it, can you try again and close this if it's resolved?

Just checked manually and seems it works correct now!

@Ladsgroup just curious but did you purge the sites table first?
I'm intrigued to know what it looks like now.

if it had previously been loaded from the "real" meta it might have a bunch of sites we don't want and also now might have some sort of inconsistent state (with some sites pointing to prod and some pointing to beta)