Regarding GRAPHIC PRINTOUTS PERIOD, one possibility would be that some discrepancy occurs for the time steps around each time when graphic printouts are applied since the code automatically adjust the time step to match the desired period. But I don't know how this is done into detail and how it affects the results you showed here. On the other hand, what we now know is that this is a problem when the time step i very large (> 100 s) and this is not an issue with common time steps (range of seconds and lower).
Anyway, for problems with very abrupt variations such as yours, a time step > 10-100 s should be avoided.
Regarding your case and the DEM quality you have, it is tricky but I would use a refined mesh (at least in some parts), mainly to make sure that the time step is kept at a reasonable level.
Regarding CN values, even with 98, you will likely have some abstractions at the first time step and if the entire model is dry, you don't have any control on the initial time step, which is large in your case (497 s...). Setting 100 (even at some nodes only) will trigger direct runoff and if mesh size is small enough, set a reasonable time step.
Good continuation!
Kind regards
PL