I have tried to use every combination of spatial join possible. It lets me input all my features but when I hit OK, it does not output a new layer. I have tried multiple layers different layers that have worked in the past. Is this a bug?
Could you explain the data types of the target and Join features? Do the layers have same coordinate system and overlay properly over each other?
What match option have you used?
Relevant screenshots will help.
Featureclasses in a geodatabase?
Both have the same coordinate system?
Could you provide details from the tool properties that you used