This study aimed to explore students’ perspectives on integrating artificial intelligence (AI) into scientific collaboration, specifically on writing academic articles and creating scientific posters. The research employed open-ended interviews conducted among 61 civil and military students. Opinions were labelled, coded, and gathered into the following categories: positive impact on collaboration, challenges faced, and educational impact. Among the positives were improving efficiency, enhancing the quality of work, and generating new ideas. The challenges concerned experiencing technical difficulties with AI tools, inconsistency in AI outputs, and AI dependence, which may lead to behaviours on the verge of addiction. Regarding educational impact, students noticed that AI helps improve learning new skills, increases engagement in the task, and enhances critical thinking. As one researcher performed the thematic analyses, Cohen’s Kappa statistic was used to ensure intra-coder reliability. This study highlights the need for further research to optimize the use of AI in scientific collaboration while addressing ethical concerns related to students’ motivations for using AI tools, promoting responsible use, and researching students’ emotions, cognitive processes, and behaviours resulting from their interactions with AI tools. The research provides valuable insights for educators and policymakers to integrate AI effectively into academic practice.