diff --git a/CHANGELOG.md b/CHANGELOG.md
index f43c0e93..65441300 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -90,9 +90,9 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [[PR #446](https://github.com/nf-core/proteinfold/pulls/446)] - Fix warnings from Nextflow lint.
 - [[PR #451](https://github.com/nf-core/proteinfold/pulls/451)] - Remove af2 multimer padding from msa plots.
 - [[#417](https://github.com/nf-core/proteinfold/issues/417)] - Add `boltz_use_kernels` parameter to enable/disable using optimized Triton-based CUDA kernels CUDA kernels for Boltz inference.
-- [[#285](https://github.com/nf-core/proteinfold/issues/285)] - Adding contributors to manifest.
-- [[PR #460](https://github.com/nf-core/proteinfold/pulls/460)] - Use `nvidia-smi` to obtaion number of SM.
 - [[#417](https://github.com/nf-core/proteinfold/issues/417)] - Handle incompatible CUDA kernel errors in Boltz by automatically retrying with `--use_kernels` false.
+- [[#285](https://github.com/nf-core/proteinfold/issues/285)] - Adding contributors to manifest.
+- [[PR #460](https://github.com/nf-core/proteinfold/pulls/460)] - Use `nvidia-smi` to obtain number of SM.
 - [[PR #454](https://github.com/nf-core/proteinfold/pulls/454)] - Update publishdir patterns for alphafold2 modules.
 - [[PR #458](https://github.com/nf-core/proteinfold/pulls/458)] - Update publishdir patterns for colabfold module.
 - [[#313](https://github.com/nf-core/proteinfold/issues/313)] - Harmonize colabfold metrics extraction with other modes.
@@ -101,6 +101,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [[PR #461](https://github.com/nf-core/proteinfold/pulls/461)] - Update publishdir patterns for HelixFold3 module
 - [[PR #462](https://github.com/nf-core/proteinfold/pulls/462)] - Update publishdir patterns for RoseTTAFold-All-Atom modules
 - [[PR #464](https://github.com/nf-core/proteinfold/pulls/454)] - Update publishdir patterns for Boltz module
+- [[PR #466](https://github.com/nf-core/proteinfold/pulls/464)] - Update module conf and publishdir patterns for ESMFold, pass through container args
 - [[PR #469](https://github.com/nf-core/proteinfold/pulls/454)] - HTML reports now in /reports output directory
 
 ### Parameters
diff --git a/conf/modules b/conf/modules
new file mode 100644
index 00000000..e69de29b
diff --git a/conf/modules_esmfold.config b/conf/modules_esmfold.config
index 3468718f..258e8f17 100644
--- a/conf/modules_esmfold.config
+++ b/conf/modules_esmfold.config
@@ -13,18 +13,22 @@
 process {
     withName: 'RUN_ESMFOLD' {
         ext.args = {params.use_gpu ? '' : '--cpu-only'}
+        containerOptions = {
+          workflow.containerEngine in ['singularity', 'apptainer'] ?
+          '--nv --env TRITON_CACHE_DIR=/tmp/triton_cache --env XDG_CACHE_HOME=/tmp' :
+          ''
+        }
         publishDir = [
             [
-                path: { "${params.outdir}/esmfold/default" },
+                path: { "${params.outdir}/esmfold/${meta.id}" },
                 mode: 'copy',
-                saveAs: { filename -> filename.equals('versions.yml') ? null : filename },
-                pattern: '*.*'
+                pattern: '*_plddt.tsv'
             ],
             [
-                path: { "${params.outdir}/esmfold/default/top_ranked_structures" },
+                path: { "${params.outdir}/esmfold/top_ranked_structures" },
                 mode: 'copy',
                 saveAs: { "${meta.id}.pdb" },
-                pattern: '*.pdb'
+                pattern: '*_esmfold.pdb'
             ]
         ]
     }