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What are you using these batteries in? Is it an RC vehicle/plane? The way RC lithium packs come, you would need to undo some wiring internally in the battery to make this work. Trying to picture what you're are doing exactly, so I can picture the most logical method of doing this.

 

Looking at your diagram with the simple switches, in 'parallel' configuration, only one battery is in circuit, the top two are not connected on the GND side?

The 'series' one works, but the 'A' switches are redundant? two each are in parallel?

You need to re-think this a bit.