While the COVID-19 pandemic has intensified counter-urban migration trends globally, with rural areas often portrayed as ideal havens, the post-migration realities and risks faced by rural in-migrants remain understudied. Addressing this research gap, this research investigates the neighborhood factors influencing risk perceptions of rural in-migrants during the COVID-19 pandemic, focusing on four rural destinations in Dali, China. Using a mixed-method approach combining questionnaires, participatory mapping, and regression analysis, we surveyed 234 rural migrants. Our study incorporates objective measurements of neighborhood environments through Participatory GIS. Findings reveal that reduced life quality and economic income are the main perceived risks among rural in-migrants during the pandemic. Neighborhood factors significantly mitigating perceived risks include green spaces, accessible living services, government satisfaction, and strong local community networks. The study also identifies varying vulnerability levels among migrant groups, with migrant workers showing higher risk perceptions than entrepreneurs or unemployed individuals. This research addresses a critical gap in migration studies by examining post-relocation risks faced by rural in-migrants, especially during global crises. It provides empirical evidence on the role of neighborhood environments in mitigating migrants' risk perceptions, offering insights for enhancing rural community resilience. The findings contribute to our understanding of rural in-migration dynamics in the context of the COVID-19 pandemic and beyond, informing strategies for sustainable rural development and migrant integration in the face of future crises.