Configuration file $HOME/.SciTEUser.properties:

autocompleteword.automatic=1
open.filter=$(all.files)
save.recent=1
save.session=1
save.position=1
load.on.activate=1
are.you.sure.on.reload=1
line.margin.visible=1
line.margin.width=4+
margin.width=0
toolbar.visible=1
statusbar.visible=1
tabbar.hide.one=1