arXiv:2609.04298v2 Announce Type: replace Abstract: Evaluating agents on the growing number of agentic benchmarks is challenging because they often require complex environments and agent integrations. We introduce Harbor Adapters, a unified evaluation infrastructure for agentic benchmarks. Our work makes three contributions. First, we develop benchmark adapters that port more than 80 benchmarks to evaluate arbitrary agents, and validate them through rigorous code review and parity experiments. Second, we conduct a large-scale evaluation of 8 models spanning capability tiers across 54 benchmarks; every model is run with Terminus-2 and with one of 3 native harnesses. This enables a broader analysis of agent capabilities and failure modes than was previously possible. Third, we introduce Harbor-Index, a curated set of 82 difficult, diverse, and high-quality tasks spanning 29 benchmarks, refined from the adapted suite through difficulty filtering, AI and human audit, and an audit-and-fix loop. Harbor-Index preserves the challenge and breadth of large-scale agentic evaluations while being affordable to run; no evaluated model-harness configuration exceeds 30% pass rate, and the strongest (GPT-5.5 with Codex) reaches 28.0%. We release the adapters, evaluation results, in-depth analysis, and Harbor-Index as open-source artifacts to support more reliable and comprehensive evaluation of language-model agents.

arXiv:2605.11182v2 Announce Type: replace Abstract: On-policy distillation (OPD) and on-policy self-distillation (OPSD) have emerged as promising post-training methods for large language models, offering dense token-level supervision on trajectories sampled from the model's own policy. However, existing results on their effectiveness remain mixed: while OP(S)D has shown promise in system prompt and knowledge internalization, recent studies also report instability and degradation. In this work, we present a comprehensive empirical study of when OPD and OPSD work, when they fail, and why. We find that OPD on mathematical reasoning is highly sensitive to teacher choice and loss formulation, whereas OPSD fails in our tested settings due to test-time absence of instance-specific privileged information (PI). In contrast, OPSD is effective when PI represents a shared latent rule, such as a system prompt or alignment preference. We identify three failure mechanisms: (1) distribution mismatch between teacher and student caused by conditioning on student-generated prefixes, (2) optimization instability from biased TopK reverse-KL gradients, and (3) an OPSD-specific limitation where the student learns a PI-free policy that aggregates PI-conditioned teachers, which is insufficient when PI is instance-specific. We further show that stop-gradient TopK objectives, RLVR-adapted teachers, and SFT-stabilized students mitigate these failures.

arXiv:2604.02322v1 Announce Type: cross Abstract: Large Language Models employing Chain-of-Thought reasoning achieve strong performance but suffer from excessive token consumption that inflates inference costs. Existing efficiency methods such as explicit length penalties, difficulty estimators, or multi-stage curricula either degrade reasoning quality or require complex training pipelines. We introduce Batched Contextual Reinforcement, a minimalist, single-stage training paradigm that unlocks efficient reasoning through a simple structural modification: training the model to solve N problems simultaneously within a shared context window, rewarded purely by per-instance accuracy. This formulation creates an implicit token budget that yields several key findings: (1) We identify a novel task-scaling law: as the number of concurrent problems N increases during inference, per-problem token usage decreases monotonically while accuracy degrades far more gracefully than baselines, establishing N as a controllable throughput dimension. (2) BCR challenges the traditional accuracy-efficiency trade-off by demonstrating a "free lunch" phenomenon at standard single-problem inference. Across both 1.5B and 4B model families, BCR reduces token usage by 15.8% to 62.6% while consistently maintaining or improving accuracy across five major mathematical benchmarks. (3) Qualitative analyses reveal emergent self-regulated efficiency, where models autonomously eliminate redundant metacognitive loops without explicit length supervision. (4) Crucially, we empirically demonstrate that implicit budget constraints successfully circumvent the adversarial gradients and catastrophic optimization collapse inherent to explicit length penalties, offering a highly stable, constraint-based alternative for length control. These results prove BCR practical, showing simple structural incentives unlock latent high-density reasoning in LLMs.

arXiv:2603.19310v2 Announce Type: replace-cross Abstract: Recent advances in large language models (LLMs) have been driven by reinforcement-learning-based post-training, which requires multiple rollouts with rewards. However, obtaining ground truth labels for the calculation of rewards on a scale often requires expensive human labeling or time-consuming verification procedures. For instance, evaluating mathematical proofs demands expert review, and open-ended question answering lacks definitive ground truth. When ground truth labels are scarce, the effectiveness of reinforcement learning fine-tuning can be constrained. We introduce MemReward, a graph-based experience memory framework: an initial LLM policy generates rollouts for each query, each comprising a thinking process and a final answer, and these rollouts are stored as experience memory. Queries, thinking processes, and answers form nodes in a heterogeneous graph with similarity and structural edges; a GNN trained on labeled rollouts propagates rewards to unlabeled rollouts during online optimization. Experiments on Qwen2.5-3B and 1.5B in mathematics, question answering, and code generation demonstrate that MemReward, with only 20% labels, achieves 97.3% of Oracle performance on 3B and 96.6% on 1.5B, surpassing Oracle in out-of-domain tasks. Performance scales smoothly with label budget, reaching 99.4% of Oracle at 70% labels.

arXiv:2507.17731v2 Announce Type: replace-cross Abstract: Over the past decade, advances in generative modeling, such as generative adversarial networks, masked autoencoders, and diffusion models, have significantly transformed biological research and discovery, enabling breakthroughs in molecule design, protein generation, catalysis discovery, drug discovery, and beyond. At the same time, biological applications have served as valuable testbeds for evaluating the capabilities of generative models. Recently, flow matching has emerged as a powerful and efficient alternative to diffusion-based generative modeling, with growing interest in its application to problems in biology and life sciences. This paper presents the first comprehensive survey of recent developments in flow matching and its applications in biological domains. We begin by systematically reviewing the foundations and variants of flow matching, and then categorize its applications into three major areas: biological sequence modeling, molecule generation and design, and peptide and protein generation. For each, we provide an in-depth review of recent progress. We also summarize commonly used datasets and software tools, and conclude with a discussion of potential future directions. The corresponding curated resources are available at https://github.com/Violet24K/Awesome-Flow-Matching-Meets-Biology.

arXiv:2603.00117v2 Announce Type: replace-cross Abstract: Living organisms exhibit persistent autonomy through internally generated goals and self-sustaining behavioral organization, yet current embodied agents remain driven by externally scripted objectives. This dependence on predefined task specifications limits their capacity for long-term deployment in dynamic, unstructured environments where continuous human intervention is impractical. We propose that personality traits provide an intrinsic organizational principle for achieving persistent autonomy. Analogous to genotypic biases shaping biological behavioral tendencies, personalities enable agents to autonomously generate goals and sustain behavioral evolution without external supervision. To realize this, we develop PEPA, a three-layer cognitive architecture that operates through three interacting systems: Sys3 autonomously synthesizes personality-aligned goals and refines them via episodic memory and daily self-reflection; Sys2 performs deliberative reasoning to translate goals into executable action plans; Sys1 grounds the agent in sensorimotor interaction, executing actions and recording experiences. We validate the framework through real-world deployment on a quadruped robot in a multi-floor office building. Operating without reliance on fixed task specifications, the robot autonomously arbitrates between user requests and personality-driven motivations, navigating elevators and exploring environments accordingly. Quantitative analysis across five distinct personality prototypes demonstrates stable, trait-aligned behaviors. The results confirm that personality-driven cognitive architectures enable sustained autonomous operation characteristic of persistent embodied systems. Code and demo videos are available at https://sites.google.com/view/pepa-persistent/.