Molecular dynamics simulations are invaluable tools that provide both a molecular understanding and a means for the rational design of polymers. However, the diversity of polymer architectures makes standardized modelling and MD simulation approaches challenging. This is particularly true for biocompatible polymers, where a key bottleneck is the lack of a comprehensive and generalizable method that streamlines the preparation of novel polymer chemistries and architectures for simulations. Here we present PolyConstruct: a generalizable computational framework that adapts biomolecular simulation pipelines to generate chemically accurate simulations of complex polymer architectures and chemistries. We highlight the utility and robustness of PolyConstruct using examples of linear, branched, star and dendritic polymers of user-defined tacticity and chemistry. We show that simulations using the PolyConstruct pipeline replicate experimentally observed behaviours of stimuli-responsive polymer systems, demonstrating its robustness for investigating complex polymer architectures.