Try changing the pattern angle of raft to 45° or something like that. If the pattern changes then it is definitely a raft issue. Or try saving that config as a new name and use the new one. I have had configs glitch out on me before specifically having to do with raft and support.
If you imported a config from an old version of slicer, it may be defaulting to use a 1 layer raft. I don't remember when raft got added to slicer but I am pretty sure it wasn't included with version that solidoodle supplied.
SD3 w/ mods:
Glass bed with QU-BD heat pad upgrade, threadless ballscrew w/ 8mm smooth rod, spectra line belt replacement, lawsy MK5 extruder, Lawsy replacement carriage, E3D hotend, Ramps 1.4 w/ reprap discount controller, DRV8825 drivers, 12v 30A PS, Acrylic case, Overkill Y-idlers, Filament alarm, Extruder fan + more.