I have created a pull request on this 
issue: https://github.com/h2database/h2database/pull/391/
I would appreciate some feedback on this. 

Basically, the whole isNull() funtionality in *SpatialDataType *is not 
working at all. Maybe Null Geometries can be added (and retrieved with 
hacks) to an R-Tree this way, but nodes can never be split in a defined 
manner. So in a large tree with many null and not-null geometries, it is 
best to give at least some bogus bounding box in which entries can then be 
arranged.

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