I got some custom q-logic type panels for my 89' and yes they take away floor space but they do not mess with the ECU...
Since mine is a 5-speed i had to take out the clutch pedal-rest to get them to fit, but now i just rest my foot under the speaker... and it's got a good grill on it so i can rest it on the speaker if i need to... i'll get some pics when im near my truck...

Greg


89 4Runner
3" BL, M/T locks, 33"bfg mt, bilstein, Kayline, tubebumper, toyotafiberglass panels
TBI: Elocker,3.4 w/ORS,b+b,S2Sstg2cams,arias pistons,P+P intake,TRDs/c,URDpullies+7th,downey headers,MAPECU2,WEGO WB, SupraMAF,walboro255,stg4clutch, EPaOo2 sim