It will not hurt to file an amended return if you do not need to file one to report FICA changes. However, it will not make a difference in your federal return if boxes 3 through 6 are the only boxes that have changed.
The reason for you to amend would be if you wife plans to collect social security and she needed proof that she DID pay FICA taxes IF the employer did not report it to the SSA. Basically, the primary reason to amend for be for later "proof" in case of error on your or her SS benefits.
Since she is getting a refund of her FICA taxes, again, this will not affect your return, it would only be "proof" that she did not pay into SS and would not be eligible for benefits. But this is not an IRS thing, it is a SSA thing.
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