Thanks can reproduce in X3E:
Create new project
Insert MIDI track
View Step Sequencer
Insert Row in Step sequencer
Use Mouse to increase or decrease Row Note Number (Name column does not change)
Use SHIFT + keyboard key to increase or decrease Row Note Number (Name column does not change)
Use mouse wheel to increase or decrease Row Note Number (Name column does not change).
Note losing focus from Row Note Number restores back previous note number.