Molecular line emissions are commonly used to trace the distribution and properties of molecular Interstellar Medium. However, the emissions are heavily blended on the Galactic disk toward the inner Galaxy because of the relatively large line widths and the velocity overlaps of spiral arms. Structure identification methods based on voxel connectivity in Position-Position-Velocity (PPV) data cubes often produce unrealistically large structures, which is the “over-linking” problem. Therefore, identifying molecular cloud structures in these directions is not trivial. We propose a new method based on Gaussian decomposition and graph theory to solve the over-linking problem, named InterStellar Medium Gaussian Component Clustering (ISMGCC). Using the Milky Way Imaging Scroll Painting (MWISP) 13CO(1–0) data in the range of 13.°5 ≤ l ≤ 14.°5, ∣b∣ ≤ 0.°5, and −100 ≤ V lsr ≤ +200 km s−1, our method identified three hundred molecular gas structures with at least 16 pixels. These structures contain 92% of the total flux in the raw data cube and show single-peaked line profiles on more than 93% of their pixels. The ISMGCC method could distinguish gas structures in crowded regions and retain most of the flux without global data clipping or assumptions on the structure geometry, meanwhile, allowing multiple Gaussian components for complicated line profiles.