Anaphora resolution is one of the old problems in Natural Language Processing. It is the process of identifying the antecedent of an anaphoric expression in a natural language text. Most of the NLP applications such as text summarization, question answering, information extraction, machine translation etc. require the successful resolution of anaphors. In this paper, we propose a methodology for the resolution of pronominal anaphors present in Malayalam text document. The proposed methodology is a hybrid architecture employing machine learning and rule-based techniques. In our study, we have used a deep level tagger developed using a machine learning based algorithm. The deep level tagger provides detailed information regarding the number and gender of nouns in a text document. The morphological features of the language are effectively utilized for the computational analysis of Malayalam text. Despite using less amount of linguistic features, our system provides better results which can be utilized for higher level NLP tasks such as question answering, text summarization, machine translation, etc.