Umm, if there is still water showing in the compartment but all systems show 'working' I often find that by scrolling down the text box showing those words there is little clock and the term "Flooding Recovery".
I tend to put men in the compartment and also at the repair station, then scroll down the relevant text box until the clock shows and then speed the time up a little.
If there is enough manpower on the job, the compartment will be pumped dry and the flooding recovery clock will run down to zero.
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