Research software collaborations span meetings, informal chats, pull requests, and GitHub issues. A decision surfaced in a Slack thread, refined in a meeting, and implemented in a pull request can lose its original rationale across these artifacts, leaving domain researchers and research software engineers with divergent mental models of project intent, ownership, and scientific assumptions. We argue that alignment in research software engineering is a continuous lifecycle problem, and that agentic AI can support stakeholder alignment and project-state tracking without replacing human decision-making. We present Aleena, an open-source lifecycle alignment agent that uses GitHub as a shared collaboration surface, transforming multi-modal stakeholder interactions into structured project records that surface risks, track open questions, and preserve decision continuity. Grounded in university-based research software engineering center experiences, this paper presents the motivating problem, system design, prototype, and illustrative lifecycle scenarios for Aleena.
The rise of agentic AI is reshaping software engineering in two intertwined directions: agents are increasingly applied to support software engineering tasks, and Agentic AI systems themselves are complex systems that require re-thinking currently established software engineering practices. To chart a coherent research agenda covering the two directions, we organized the A2SE seminar in Rio de Janeiro, bringing together 18 experts from academia and industry. Through structured presentations, collaborative topic clustering, and focused group discussions, participants identified six thematic areas: Governance, Software Engineering for Agents, Agents for Software Architecture, Quality and Evaluation, Sustainability, and Code, and they prioritized short-term and long-term research directions for each. This paper presents the resulting community-driven, opinionated research agenda, offering the SE community a structured foundation for coordinating efforts at this critical juncture.
Davide Taibi, Henry Muccini, Karthik Vaidhyanathan +15
Scientific publication compresses a branching, iterative research process into a linear narrative, discarding the majority of what was discovered along the way. This compilation imposes two structural costs: a Storytelling Tax, where failed experiments, rejected hypotheses, and the branching exploration process are discarded to fit a linear narrative; and an Engineering Tax, where the gap between reviewer-sufficient prose and agent-sufficient specification leaves critical implementation details unwritten. Tolerable for human readers, these costs become critical when AI agents must understand, reproduce, and extend published work. We introduce the Agent-Native Research Artifact (ARA), a protocol that replaces the narrative paper with a machine-executable research package structured around four layers: scientific logic, executable code with full specifications, an exploration graph that preserves the failures compilation discards, and evidence grounding every claim in raw outputs. Three mechanisms support the ecosystem: a Live Research Manager that captures decisions and dead ends during ordinary development; an ARA Compiler that translates legacy PDFs and repos into ARAs; and an ARA-native review system that automates objective checks so human reviewers can focus on significance, novelty, and taste. On PaperBench and RE-Bench, ARA raises question-answering accuracy from 72.4% to 93.7% and reproduction success from 57.4% to 64.4%. On RE-Bench's five open-ended extension tasks, preserved failure traces in ARA accelerate progress, but can also constrain a capable agent from stepping outside the prior-run box depending on the agent's capabilities. Our code is open-sourced at https://github.com/Orchestra-Research/Agent-Native-Research-Artifact.
AI agents have become increasingly capable at isolated software engineering (SWE) tasks such as resolving issues on Github. Yet long-horizon tasks involving multiple interdependent subtasks still pose challenges both with respect to accuracy, and with respect to timely completion. A natural approach to solving these long-horizon tasks in a timely manner is asynchronous multi-agent collaboration, where multiple agents work on different parts of the task at the same time. But effective application of multi-agent systems has proven surprisingly difficult: concurrent edits by multiple agents interfere with each other, dependencies are difficult to synchronize, and combining partial progress into a coherent whole is challenging. On the other hand, human developers have long relied on mature collaboration infrastructure to manage these challenges in large software projects. Inspired by these collaboration primitives, we introduce Centralized Asynchronous Isolated Delegation (CAID), a structured multi-agent coordination paradigm grounded in three core SWE primitives: centralized task delegation, asynchronous execution, and isolated workspaces. CAID constructs dependency-aware task plans through a central manager, executes subtasks concurrently in isolated workspaces, and consolidates progress via structured integration with executable test-based verification. In empirical evaluation, we find that CAID improves accuracy over single-agent baselines by 25.6% absolute on paper reproduction tasks (PaperBench) and 14.7% on Python library development tasks (Commit0). Through systematic analysis, we find that branch-and-merge is a central coordination mechanism for multi-agent collaboration, and that SWE primitives such as git worktree, git commit, and git merge enable it to be realized in a reliable and executable manner.