To ask "do you love me?" in Malayalam, you can say:
"നീ എന്നെ സ്നേഹിക്കുന്നുണ്ടോ?" (nee enne snehikkunnu undo?)
Please note that the transliteration provided here is in the Roman script. Malayalam is a Dravidian language spoken in the Indian state of Kerala, and it has its own unique script. If the person you are asking is familiar with the script, it would be more appropriate to use the Malayalam script to write the question.