People seem to have trouble with this but its not all that hard.
The first generation Probes came in three trim levels as follows:
GL - 2.2L I-4 12 valves. Your basic Probe.
LX - 2.2L I-4 12 valve in 1989
3.0L V-6 12 valve in 1990-1992 (Ford Vulcan 3.0L from Taurus)
GT - 2.2L 12 valve Turbo I-4 89-92.
Most options were available on all years. The GT's came standard with aluminum rims and more ground fx.
Second Generation Probes really came in two trim levels, base and GT with an "SE" option for the base.
The GT had the 2.5L Mazda 24V V6. It came with ground FX, different front and rear bumpers, and 16 inch aluminum wheels. All other options were extra cost options.
Base 1993-1996 2.0L I-4 engine, rounded front bumper
Base with SE package 1993-1996 had different appearances, some '93's had the round bumper but nearly all had the GT bumper. Some 93 and 94 had the GT ground fx on the side. All came with three spoke 15 inch aluminum rims.
1997 was slightly different. The SE option package was dropped, effectively making 2.0L Probes base cars. However, the rounded front bumper was also dropped, putting the SE/GT front bumper on all Probes. The 15 inch 3 spoke wheels were a stand alone option. With the wheels, there is no difference between a 97 Probe and a 96 SE except for the lack of SE stickers.
I guess my point is there is nothing special about the SE, and it was infact a factory option like ordering power windows, air conditioning or a better stereo. So it wasn't even really an actual trim level like the GT or the old GL to LX step from the first generation.
1997 Probe "16V" SE
NGK Plugs, K&N filter, Eurospec 16V emblem, GT fogs, and hopefully more soon...