Correct, you don't need to set up a aggregate device (as a matter of fact, you cannot use DVS in Traktor with aggregated interfaces because Traktor then doesn't recognize them as traktor certified devices).
You simply need to select under "Preferences-Audio" the Audio 6 as your sound interface. Under "Input routing" you would select 1/2 for deck A, 2/3 for deck B and under "Output routing" you select headphone output on the A6 for cue and one of the RCA outputs as master output.
I don't even think you need any special mappings for the S5.
The downside of this setup is you loose the possibility to use XLR/booth outputs on the S5. I'm not sure it is possible to route master RCA output from A6 in this case into the AUX input on the S5 and then through it's XLR...
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