The guys at our Hotel in Brno, CZ warned us about this scenario when we were there for the MotoGP a few years back. Heavy rain had overcome the drainage systems in places creating flooded areas, mainly at intersections - this, coupled with a spate of metal thefts left some dangerous hidden hazzards. Ok, probably not deep enough to park the bike in, but sufficient to wreck the bike & the touring holiday. The recommendation was to try to always follow the tracks of others, preferably locals, leaving a sensible distance to avoid ever needing to stop in the pooled water - pretty obvious after all.
We saw the same issue, but thankfully it revealed itself on a dry road, on our way through Prague too. The lesson there was never follow other vehicles too closely, to give yourself time to avoid the odd missing drain cover & some of their enormous pot holes. I have to say, after a huge detour due to floods/roadworks, it was a pleasure to reach the Fatherland & a superb stretch of de-restricted Autobahn on our way to the overnight in Dresden.
Ride Safe ................... KEN