The　agglomerate　microstructure　determines　the　performance　of　the　agglomerates　in　heap　leaching.　However,　a　detailed　analysis　of　the　agglomerate　microstructure　is　still　highly　desirable.　The　purpose　of　this　paper　is　to　conduct　a　comprehensive　analysis　of　the　agglomerate　microstructure　to　guide　the　agglomeration　process.　In　this　work,　the　microstructure　of　agglomerates　prepared　by　geopolymerization　was　studied　in　detail.　Besides,　the　effect　of　the　agglomerate　microstructure　on　leaching　was　verified　by　column　bioleaching　tests.　Fourier　transform　infrared　spectroscopy　(FTIR)　and　nuclear　magnetic　resonance　(NMR)　tests　indicated　that　geopolymer　gel　mainly　bound　the　particles　in　agglomerates　prepared　by　geopolymerization,　and　X-ray　diffraction　(XRD)　and　energy　dispersive　spectra　(EDS)　tests　showed　that　the　aluminosilicate　in　the　ore　hardly　participated　in　geopolymerization.　X-ray　microtomography　(XMT)　test　showed　that　there　were　many　pores　and　cracks　between　particles　in　the　agglomerates　prepared　by　geopolymerization.　The　column　bioleaching　tests　revealed　that　the　agglomerates　were　quite　stable,　and　the　permeability　and　copper　extraction　of　the　agglomerates　were　still　higher　than　that　of　the　ore　with　the　same　particle　size　distribution.　These　results　demonstrated　that　the　agglomerates　prepared　by　geopolymerization　had　a　microstructure　suitable　for　heap　leaching.