I am not an expert, you should consult a tax attorney. The procedure for transferring funds runs like this.
Your non-profit corporation opens a bank account. Individuals can donate funds into the account. Your lodge can host a fund-raiser. The proceeds from the fund-raiser can go into the corporate account.
The non-profit corporation can disburse (spend) any of the money in the account on projects, that are in accordance with applicable laws.
Many lodges set up "temple associations", and other such entities, to enable Masons (and other persons) to contribute to Masonically-affiliated charities, and be eligible for a tax deduction. I suggest that you contact a nearby lodge, or other service club (Rotary, Lion, Civitan), and get some advice. Chances are that some organization in your community, has set up a non-profit foundation, to enable individuals to support their actvities, and get the tax deduction.