The purpose of this check is to flag highways intersecting power or waterway objects.
dam and weir waterway objects are not flagged, these type of waterways can intersect with highways.
For waterway objects the intersection with a highway having leisure=slipway or ford=yes tag is allowed, and they are not flagged.
There are no configurables for this check.
Please see the source code for HighwayIntersectionCheck here: HighwayIntersectionCheck