Channel coding for 6G networks is expected to support a wide range of requirements arising from heterogeneous communication scenarios. These demands challenge traditional code-specific decoders, which lack the flexibility and scalability required for next-generation systems. To tackle this problem, we propose an AI-native foundation model for unified and code-agnostic decoding based on the transformer architecture. We first introduce a cross-attention message-passing transformer (CrossMPT). CrossMPT employs two masked cross-attention blocks that iteratively update two distinct input representations-magnitude and syndrome vectors-allowing the model to effectively learn the decoding problem. Notably, our CrossMPT has achieved state-of-the-art decoding performance among single neural decoders. Building on this, we develop foundation CrossMPT (FCrossMPT) by making the architecture invariant to code length, rate, and class, allowing a single trained model to decode a broad range of codes without retraining. To further enhance decoding performance, particularly for short blocklength codes, we propose CrossMPT ensemble decoder (CrossED), an ensemble decoder composed of multiple parallel CrossMPT blocks employing different parity-check matrices. This architecture can also serve as a foundation model, showing strong generalization across diverse code types. Overall, the proposed AI-native code-agnostic decoder offers flexibility, scalability, and high performance, presenting a promising direction to channel coding for 6G networks.