Abstract: Disaggregating the prefill and decoding phases represents an effective new paradigm for generative inference of large language models (LLM). This approach offers some significant system advantages, such as eliminating prefill-decoding interference and optimizing resource allocation. However, it is still an challenging open problem about how to deploy the disaggregated inference paradigm across a group of heterogeneous GPUs, which can be an economic alternative of the deployment over the homogeneous high performance GPUs.Towards this end, we introduce HexGen-2, a distributed system for high throughput and cost-efficient LLM serving on heterogeneous GPUs following the disaggragated paradigm. Built on top of HexGen, the core component of HexGen-2 is a sophisticated scheduling algorithm that formalizes the allocation of disaggregated LLM inference computations and communications over heterogeneous GPUs and network connections as a constraint optimization problem. We leverage the graph partitioning and max-flow algorithm to co-optimize resource allocation, parallel strategies for distinct inference phases, and the efficiency of inter-phase key-value (KV) cache communications. We conduct extensive experiments to evaluate HexGen-2, i.e., on OPT (30B) and Llama-2 (70B) models in various real-world settings, the results reveal that HexGen-2 delivers up to a 2.0$\times$ and on average a 1.3$\times$ improvement in serving throughput, reduces the average inference latency by 1.5$\times$ compared with state-of-the-art systems given the same price budget, and achieves comparable inference performance with a 30% lower price budget.