I am confused. If you are a USC, you married your wife in US, she has a visa which allows her to enter the US, why are you living in Mexico? When you intend to live in the US you file for her. If she entered the US as a B2 and before the visa expired you filed the Immediate Relative petition and the adjustment of status, she wouldn't accrue unlawful presence while the petition is being adjudicated. Alternatively, she can choose to consular process. I don't see the reason to wait. I certainly wouldn't condition apply for a green card based on a membership to SENTRI.
For info on adjustment of status, seehttp://www.mlawonline.com/blog/everything-you-need-to-know-for-new-jersey-adjustment-of-status.cfm. For info on consular process, see http://www.mlawonline.com/faqs/what-is-consular-process-in-new-jersey-immigration-petition.cfm.
You have in effect chosen your own path: your wife will need to immigrate through the US consulate general in Ciudad Juarez. It is going to be a long and difficult process. I urge to schedule a private, confidential consultation with a skilled immigration lawyer as to other options that may be available.
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As you say you are a US citizen thus not a commuter unless under Mexican immigration law. Since you have not filed a petition for her then she can enter and exit with her tourist visa until you do. If you want commuter status for her them she must live and work in two different places therefore since you have chosen to live in Mexico instead of US she can not gain commuter status.