output of afni -ver:
Precompiled binary macos_10.12_local: Jun 13 2019 (Version AFNI_19.1.19 'Caligula')

my afni_proc.py command:
afni_proc.py \
-subj_id P05 \
-script proc.P05.vwfa \
-out_dir P05.VWFA.results \
-dsets P05_vwfa_1+orig P05_vwfa_2+orig \
-copy_anat P05_2_t1+orig \
-blocks despike tshift align volreg blur mask scale regress \
-tcat_remove_first_trs 5 \
-tshift_interp -Fourier \
-volreg_align_to MIN_OUTLIER \
-align_opts_aea \
-giant_move \
-volreg_align_e2a \
-mask_apply anat \
-regress_stim_times word.txt checkerboard.txt \
-regress_local_times \
-regress_stim_labels word checkerboard \
-regress_basis 'BLOCK(24,1)' \
-regress_censor_motion 0.3 \
-regress_censor_outliers 0.1 \
-regress_apply_mot_types demean deriv \
-regress_opts_3dD \
-jobs 4 \
-gltsym 'SYM: +word -checkerboard' \
-glt_label 1 word_vs_checkerboard \
-regress_run_clustsim no \
-regress_est_blur_errts \
-regress_est_blur_epits

image overlaying any of the EPI volumes on the anatomical *before* alignment
In the first image I attached in last post, the overlay is pb02.P05.r01.tshift and underlay is anatomical image. In second image the overlay is pb03.P05.r01.volreg. It seems to me that the epi was aligned better before carrying out alignment block.

Thanks a lot for your help!