One thing I'm noticing quickly is that your arrays are being created as strings instead of arrays, or single item arrays.
Notice I've added quotes around each IP in $DNS instead of the entire string and changed $WINS to a string since you only have one WINS IP.

param (
    [parameter(Mandatory=$True]
    [string]$file
)

function Set-DNSWINS {
    param (
        [string]$computer,
        [array]$DNS = "10.0.0.101","10.0.0.100"
        [string]$WINS = "10.0.0.100"
    )

    #Get NICS via WMI
    gwmi Win32_NetworkAdapterConfiguration -ComputerName $computer | ? { $_.IPAddress -like "10.0.0.*" } | % {
        $_.SetDNSServerSearchOrder($DNS)
        $_.SetDynamicDNSRegistration("TRUE")
        $_.SetWINSServer($WINS)
    }
}

Get-Content $file | % { Set-DNSWINS $_ }

Now, you may still see output that seems odd because $_.SetNNN is going to output its results to the console.  Add " | Out-Null" to each line if you do not want any output.