There's only one flasher, located with the other electrics under one of the side panels (opposite the battery).
The original rear turn signals don't have marker lights. There are wires on the harness for them though, and some PO might have installed marker lights; they would have 2 filament bulbs like an 1187 rahther than the original single filament ones.
What signals did you install? If you used LED types, there isn't enough current draw to make the flasher flash. You can install load resistors which just waste power or, better, an electronic 3-wire flasher like the Grote 44893 - or any electronic flasher listed as correct for a 70-91 Audi (except the 86 Audi 5000). There are other 3-wire flashers that will not work. The Grote has a constant flash rate with any load, others may give you a very fast or slow rate with LED lamps as they think you have a signal light burnt out (due to the low load power) and give a special flash rate to tell you about it.
There's a loose green wire near the existing 2-wire flasher, connect it to the G or unique numbered terminal (39?), the power wire goes to the X or letterless number (41?) and the load wire goes to L or the lettered number terminal (41a?) on the new 3-terminal flasher.