First, Ali Gharib in the Forward makes the case for the cancellation, at The Forward's Foward Thinking:
The university, in tandem with its notice to Hirsi Ali that her award was rescinded, invited her to campus to expound on her views in a forum that did not confer upon her any honor.
That latter invitation was the lynchpin in Brandeis’s strategy to correct its mistake — the initial offer of an honor — in the best way possible: by preserving the notion that universities should be bastions of free thought, even for deeply unpopular ideas.
And it is that invitation which renders moot Hirsi Ali’s complaint that “neither Brandeis nor my critics knew or even inquired as to what I might say. They simply wanted me to be silenced.” The issue with honoring Hirsi Ali was never what she may say — hence the standing invitation to speak — but rather what she has said.
Hirsi Ali’s record is plump with remarks that any tolerant, liberal institution should view with caution. Her personal narrative and work on women’s rights may tell a different, laudable story, but not one that outweighs the pattern of hostility toward a major world religion.
This hostility crosses boundaries beyond atheistic skepticism and into literal militant opposition to one faith in particular: Islam. Hirsi Ali claims her “critics have long specialized in selective quotation – lines from interviews taken out of context – designed to misrepresent me and my work.”
More here. Ayaan Hirsi Ali comments on the whole incidence, in The Weekly Standard:
When Brandeis approached me with the offer of an honorary degree, I accepted partly because of the institution’s distinguished history; it was founded in 1948, in the wake of World War II and the Holocaust, as a co-educational, nonsectarian university at a time when many American universities still imposed rigid admission quotas on Jewish students. I assumed that Brandeis intended to honor me for my work as a defender of the rights of women against abuses that are often religious in origin. For over a decade, I have spoken out against such practices as female genital mutilation, so-called 'honor killings,' and applications of Sharia Law that justify such forms of domestic abuse as wife beating or child beating. Part of my work has been to question the role of Islam in legitimizing such abhorrent practices. So I was not surprised when my usual critics, notably the Council of American-Islamic Relations (CAIR), protested against my being honored in this way.
What did surprise me was the behavior of Brandeis. Having spent many months planning for me to speak to its students at Commencement, the university yesterday announced that it could not “overlook certain of my past statements,” which it had not previously been aware of. Yet my critics have long specialized in selective quotation – lines from interviews taken out of context – designed to misrepresent me and my work. It is scarcely credible that Brandeis did not know this when they initially offered me the degree.