This paper provides a comprehensive survey of the Intelligent Internet of Things (IoT), focusing on its applications, security, and privacy issues. The authors explore the integration of artificial intelligence (AI) techniques into IoT to enhance its capabilities in various domains such as smart healthcare, smart cities, smart transportation, and smart industries. They discuss the challenges and potential solutions for security and privacy concerns, including network attacks, confidentiality, integrity, intrusion, data leakage, location privacy, and model privacy. The paper also highlights key technical challenges and future research directions in the field of Intelligent IoT. The contributions of the work include a review of state-of-the-art applications, identification of security vulnerabilities, and exploration of privacy threats, along with potential countermeasures and research directions. The paper is structured into several sections, covering the state-of-the-art in AI-based IoT, the integration of ML, DL, FL, and DRL, and the application of these technologies in various IoT domains. It concludes with a discussion on the future directions and challenges in the field.This paper provides a comprehensive survey of the Intelligent Internet of Things (IoT), focusing on its applications, security, and privacy issues. The authors explore the integration of artificial intelligence (AI) techniques into IoT to enhance its capabilities in various domains such as smart healthcare, smart cities, smart transportation, and smart industries. They discuss the challenges and potential solutions for security and privacy concerns, including network attacks, confidentiality, integrity, intrusion, data leakage, location privacy, and model privacy. The paper also highlights key technical challenges and future research directions in the field of Intelligent IoT. The contributions of the work include a review of state-of-the-art applications, identification of security vulnerabilities, and exploration of privacy threats, along with potential countermeasures and research directions. The paper is structured into several sections, covering the state-of-the-art in AI-based IoT, the integration of ML, DL, FL, and DRL, and the application of these technologies in various IoT domains. It concludes with a discussion on the future directions and challenges in the field.