It is wrong to say that this song which today is our National Song was also instrumental in uniting "millions of freedom fighters". During the freedom struggle, this song was just one of the many things that were instrumental in making the freedom fighters rally forth in the cause of freedom.
As far as Muslims are declaring it un-Islamic, the reason is simple... they are NOT permitted by Islam to bow down to any body or thing except God. Not even mother or even the grave of their Prophet.

Har cheez main ungli karna unka janm siddh adhikar hai

Let them feel what they want to feel. why do you bother. you have your faith in the song vande matra,m, that is more than sufficient

Jana Gana Mana was chosen as the National Anthem of independent India. Vande Mataram was rejected on the grounds that Muslims, Christians, Parsis, Sikhs, Arya Samajis and others who opposed idol worship felt offended by its depiction of the nation as "Mother Durga" a Hindu goddess. Muslims also felt that its origin as part of Anandamatha, a novel they felt had an anti-Muslim message.

Though a number of Muslim organizations and individuals have opposed Vande Mataram being used as a "national song" of India, citing many religious reasons, some Muslim personalities have admired and even praised Vande Mataram as the "National Song of India" . Arif Mohammed Khan, a former member of parliament for the Bharatiya Janata Party, wrote an Urdu translation of Vande Mataram which starts as Tasleemat, maan tasleemat. In 2006, amidst the controversy of whether singing of the song in schools should be mandatory or optional, no Indian Muslims did show support for singing the song.

All India Sunn ...more

There is a confusion what VANDE means

It is a shame. To always go against the tide.
And then complain of discrimination.

Nothing doing.it wil remain as it is.