Thanks. It makes lots of sense. Yes, I missed the old LED's test. I'll try it.
I've been testing several things through this whole afternoon and each time it seems more likely it's gonna be an inductive issue (for instance, the hardware works fine with just one motor connected).
The motors are brushed DC (I think. I know them as DC motors with reduction). The project as well is about a couple of robots (two motors per robot), controlled via wireless (using ZigBee) and using a PC. Both robots will work with a single battery and for test purposes I'm working with a DC adapter.
Common power supply (it should go separeted but during the first tests it worked quiet. Power supply has 12v, motors work with 9v and control with 3.3v).
I'm using a bunch of filters to keep the noise away from the control stage. The main one is at the beginning of the whole circuit (next to the power supply) and has a diode and a 100uF capacitor. The regulators and the microprocessor also have their own little filters.
I'll check if I can try the LED's test right now, if not, until sunday!
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Thanks again!.