Generative recommendation (GR) has shown great promise in industrial applications, particularly for candidate generation and end-to-end recommendations. However, existing GR training paradigms suffer from two fundamental mismatches with real-world deployment requirements. First, they optimize for point-wise prediction of a single ground-truth item, whereas practical systems must produce a diverse, high-value set of candidates. Second, they treat all user interactions as equally informative, ignoring their inherent differences in utility. Although reward-based fine-tuning offers a partial remedy, it often lacks token-level supervision. To address these challenges, we reformulate GR as a sequential set-generation problem and propose GFlowGR, a GFlowNet-based fine-tuning framework that explicitly aligns generation probabilities with item-level utilities. GFlowGR comprises three tightly integrated components, each addressing a key limitation of conventional fine-tuning: a trajectory sampler that constructs training trajectories from candidate sets to enable set-wise learning, a behavior-aware reward model that quantifies item utility to support value-aware optimization, and a GFlowNet objective that provides token-level supervision. Extensive experiments on three real-world datasets with two representative LLM-based GR backbones show consistent and significant improvements over strong baselines, validating the effectiveness of our approach. For real-world deployment, GFlowGR has been integrated into Taobao 's search advertising businesses, delivering a 0.4% relative improvement in annual revenue since its launch in mid-2025, corresponding to billion-level monetary gains. Code is available at https://github.com/Applied-Machine-Learning-Lab/SIGIR26_GFlowGR.