yangkun,
Are you looking to build a multiphase converter, or are you trying to only use a single phase of the BOOSTXL-3PHGANINV here?
Regardless, I think the biggest issue you would have here is that this EVM is set up for motor drive, and the switches in their normal orientation are as for a buck topology:
In essence, to perform what you are asking, you would need to effectively drive the EVM backwards. While theoretically this is possible, I would not recommend this for the EVM, since this would create a litany of challenges, especially in trying to amend the code samples provided alongside the EVM to perform this action. I'm also not aware if it would cause any issues with the designed in protections for this board, as this was not the intended operation. That said, if you do attempt this, I don't think removal/disabling of the bulk caps would be necessary here, as they could simply be accounted for in your total output capacitance to meet ESR and ripple requirements.
If you can give me an idea of the total system you are trying to design here (single or multiphase, nature of the input signal, power delivery/efficiency target, etc.), I can make some recommendations.
