The role of ontologies in facilitating search capabilities within large collections of data is critical; the integration and analysis of diverse data sources becomes feasible as ontologies frame the data conceptually and provide a common understanding of terms and their relationships- the lack of ontological and conceptual support entailing the opposite effect. Along with documents and data lost in the vast-ness of available yet disparate data sources, numerous scientific papers and published research remain undiscovered due to poor linking to their respective scientific domain and investigation method(s) described in them. Within the scope of this study is to retrieve existing Wikidata method codes for 3 disciplines: psychology, neuroscience and cultural heritage, and analyse them, with the purpose of identifying gaps in the usage of hierarchical levels or codes, and examining whether they are currently capable of sufficiently describing the methodological domains in question, while also pertaining to a suitable level of specificity in or-der for the related data to be efficiently and effectively queried and retrieved. The findings revealed several issues regarding the discoverability and semantic search capabilities to retrieve scientific literature papers on research (or investigation) methods and tooling for the in-word disciplines. In this light, a proposed methodology to alleviate the current situation is drafted, introducing the utilisation of technological means, such as LLMs, to assist in identifying orphan categories of methods or tools and, by benchmarking against basic existing ontologies (e.g., FrameNet or other related Linked Open Vocabularies), to enrich the hierarchical structure of current representation practices in this regard.