What Happens During Autonomous Deep Research After the User Steps Away?

In autonomous deep research, a user provides a task and relevant background, then leaves the agent to conduct an extended investigation without further human intervention. We study how this initial user information is reflected in intermediate actions and how these actions relate to final recommendations. We introduce DRaligned, a counterfactual behavioral evaluation framework built on PDR-Bench. By varying one task-relevant user factor while keeping the remaining context fixed, we compare acquisition requests, working drafts, and final reports. Source-grounded extraction, blinded local judgments, and deterministic aggregation yield coarse directional measurements while leaving ambiguous cases unresolved. Our experiments show that strong user-specific delivery can emerge from a largely shared research process: agents investigate similar broad questions but allocate requests differently, and final recommendations distinguish user conditions more clearly than explicit requests do. Reports can also integrate user factors that were not jointly visible during acquisition. In readable draft-to-report comparisons, recommendations often retain their coarse user-specific direction despite substantial rewriting. Final directional differences recur across tested agent models, execution harnesses, and evaluator models, even as execution paths vary. These findings describe how initial user information shapes autonomous research and clarify the relationship between the process an agent follows and the recommendations it delivers.